-- dump date 20140620_010550 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1215088000001 putative mercuric reductase; Provisional; Region: PRK13748 1215088000002 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 1215088000003 metal-binding site [ion binding] 1215088000004 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088000005 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1215088000006 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 1215088000007 metal-binding site [ion binding] 1215088000008 putative mercuric transport protein; Provisional; Region: PRK13751 1215088000009 putative transcriptional regulator MerR; Provisional; Region: PRK13752 1215088000010 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1215088000011 DNA binding residues [nucleotide binding] 1215088000012 dimer interface [polypeptide binding]; other site 1215088000013 mercury binding site [ion binding]; other site 1215088000014 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1215088000015 Ethanolamine utilisation protein, EutH; Region: EutH; cl01248 1215088000016 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088000017 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 1215088000018 DNA binding residues [nucleotide binding] 1215088000019 dimerization interface [polypeptide binding]; other site 1215088000020 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1215088000021 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1215088000022 MOSC domain; Region: MOSC; pfam03473 1215088000023 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1215088000024 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; cd00322 1215088000025 FAD binding pocket [chemical binding]; other site 1215088000026 conserved FAD binding motif [chemical binding]; other site 1215088000027 phosphate binding motif [ion binding]; other site 1215088000028 beta-alpha-beta structure motif; other site 1215088000029 NAD binding pocket [chemical binding]; other site 1215088000030 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 1215088000031 catalytic loop [active] 1215088000032 iron binding site [ion binding]; other site 1215088000033 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1215088000034 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1215088000035 NAD(P) binding site [chemical binding]; other site 1215088000036 catalytic residues [active] 1215088000037 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1215088000038 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1215088000039 inhibitor site; inhibition site 1215088000040 active site 1215088000041 dimer interface [polypeptide binding]; other site 1215088000042 catalytic residue [active] 1215088000043 benzoate transport; Region: 2A0115; TIGR00895 1215088000044 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088000045 putative substrate translocation pore; other site 1215088000046 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088000047 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088000048 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088000049 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1215088000050 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088000051 DNA-binding site [nucleotide binding]; DNA binding site 1215088000052 FCD domain; Region: FCD; pfam07729 1215088000053 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088000054 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1215088000055 DNA-binding site [nucleotide binding]; DNA binding site 1215088000056 FCD domain; Region: FCD; pfam07729 1215088000057 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1215088000058 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1215088000059 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1215088000060 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 1215088000061 Walker A/P-loop; other site 1215088000062 ATP binding site [chemical binding]; other site 1215088000063 Q-loop/lid; other site 1215088000064 ABC transporter signature motif; other site 1215088000065 Walker B; other site 1215088000066 D-loop; other site 1215088000067 H-loop/switch region; other site 1215088000068 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 1215088000069 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 1215088000070 dimer interface [polypeptide binding]; other site 1215088000071 conserved gate region; other site 1215088000072 putative PBP binding loops; other site 1215088000073 ABC-ATPase subunit interface; other site 1215088000074 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 1215088000075 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 1215088000076 dimer interface [polypeptide binding]; other site 1215088000077 conserved gate region; other site 1215088000078 ABC-ATPase subunit interface; other site 1215088000079 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1215088000080 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1215088000081 conserved cys residue [active] 1215088000082 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088000083 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1215088000084 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1215088000085 EamA-like transporter family; Region: EamA; pfam00892 1215088000086 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 1215088000087 ATP binding site [chemical binding]; other site 1215088000088 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1215088000089 putative Mg++ binding site [ion binding]; other site 1215088000090 nucleotide binding region [chemical binding]; other site 1215088000091 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1215088000092 ATP-binding site [chemical binding]; other site 1215088000093 AAA ATPase domain; Region: AAA_16; pfam13191 1215088000094 AAA domain; Region: AAA_22; pfam13401 1215088000095 Integrase core domain; Region: rve; pfam00665 1215088000096 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1215088000097 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1215088000098 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1215088000099 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 1215088000100 glutaminase active site [active] 1215088000101 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 1215088000102 dimer interface [polypeptide binding]; other site 1215088000103 active site 1215088000104 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 1215088000105 dimer interface [polypeptide binding]; other site 1215088000106 active site 1215088000107 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1215088000108 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1215088000109 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1215088000110 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 1215088000111 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1215088000112 Substrate binding site; other site 1215088000113 Mg++ binding site; other site 1215088000114 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 1215088000115 active site 1215088000116 substrate binding site [chemical binding]; other site 1215088000117 CoA binding site [chemical binding]; other site 1215088000118 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1215088000119 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1215088000120 gamma subunit interface [polypeptide binding]; other site 1215088000121 epsilon subunit interface [polypeptide binding]; other site 1215088000122 LBP interface [polypeptide binding]; other site 1215088000123 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1215088000124 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1215088000125 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 1215088000126 alpha subunit interaction interface [polypeptide binding]; other site 1215088000127 Walker A motif; other site 1215088000128 ATP binding site [chemical binding]; other site 1215088000129 Walker B motif; other site 1215088000130 inhibitor binding site; inhibition site 1215088000131 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1215088000132 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1215088000133 core domain interface [polypeptide binding]; other site 1215088000134 delta subunit interface [polypeptide binding]; other site 1215088000135 epsilon subunit interface [polypeptide binding]; other site 1215088000136 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1215088000137 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1215088000138 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 1215088000139 beta subunit interaction interface [polypeptide binding]; other site 1215088000140 Walker A motif; other site 1215088000141 ATP binding site [chemical binding]; other site 1215088000142 Walker B motif; other site 1215088000143 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1215088000144 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1215088000145 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1215088000146 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1215088000147 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1215088000148 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1215088000149 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1215088000150 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1215088000151 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 1215088000152 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1215088000153 ParB-like nuclease domain; Region: ParBc; pfam02195 1215088000154 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1215088000155 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1215088000156 P loop; other site 1215088000157 Nucleotide binding site [chemical binding]; other site 1215088000158 DTAP/Switch II; other site 1215088000159 Switch I; other site 1215088000160 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 1215088000161 Magnesium ion binding site [ion binding]; other site 1215088000162 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1215088000163 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 1215088000164 S-adenosylmethionine binding site [chemical binding]; other site 1215088000165 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1215088000166 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1215088000167 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1215088000168 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1215088000169 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1215088000170 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1215088000171 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1215088000172 G1 box; other site 1215088000173 GTP/Mg2+ binding site [chemical binding]; other site 1215088000174 Switch I region; other site 1215088000175 G2 box; other site 1215088000176 Switch II region; other site 1215088000177 G3 box; other site 1215088000178 G4 box; other site 1215088000179 G5 box; other site 1215088000180 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1215088000181 membrane protein insertase; Provisional; Region: PRK01318 1215088000182 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1215088000183 hypothetical protein; Provisional; Region: PRK14371 1215088000184 ribonuclease P; Reviewed; Region: rnpA; PRK00396 1215088000185 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1215088000186 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1215088000187 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 1215088000188 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1215088000189 Walker A motif; other site 1215088000190 ATP binding site [chemical binding]; other site 1215088000191 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 1215088000192 Walker B motif; other site 1215088000193 arginine finger; other site 1215088000194 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 1215088000195 DnaA box-binding interface [nucleotide binding]; other site 1215088000196 DNA polymerase III subunit beta; Validated; Region: PRK05643 1215088000197 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 1215088000198 putative DNA binding surface [nucleotide binding]; other site 1215088000199 dimer interface [polypeptide binding]; other site 1215088000200 beta-clamp/clamp loader binding surface; other site 1215088000201 beta-clamp/translesion DNA polymerase binding surface; other site 1215088000202 recombination protein F; Reviewed; Region: recF; PRK00064 1215088000203 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088000204 Walker A/P-loop; other site 1215088000205 ATP binding site [chemical binding]; other site 1215088000206 Q-loop/lid; other site 1215088000207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088000208 ABC transporter signature motif; other site 1215088000209 Walker B; other site 1215088000210 D-loop; other site 1215088000211 H-loop/switch region; other site 1215088000212 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1215088000213 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 1215088000214 Mg2+ binding site [ion binding]; other site 1215088000215 G-X-G motif; other site 1215088000216 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 1215088000217 anchoring element; other site 1215088000218 dimer interface [polypeptide binding]; other site 1215088000219 ATP binding site [chemical binding]; other site 1215088000220 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 1215088000221 active site 1215088000222 putative metal-binding site [ion binding]; other site 1215088000223 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1215088000224 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1215088000225 Integrase core domain; Region: rve; pfam00665 1215088000226 Bacterial TniB protein; Region: TniB; pfam05621 1215088000227 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1215088000228 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1215088000229 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1215088000230 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1215088000231 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1215088000232 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1215088000233 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1215088000234 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1215088000235 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1215088000236 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1215088000237 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1215088000238 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1215088000239 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088000240 active site 1215088000241 phosphorylation site [posttranslational modification] 1215088000242 intermolecular recognition site; other site 1215088000243 dimerization interface [polypeptide binding]; other site 1215088000244 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 1215088000245 DNA binding site [nucleotide binding] 1215088000246 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1215088000247 HAMP domain; Region: HAMP; pfam00672 1215088000248 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 1215088000249 dimer interface [polypeptide binding]; other site 1215088000250 phosphorylation site [posttranslational modification] 1215088000251 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 1215088000252 ATP binding site [chemical binding]; other site 1215088000253 Mg2+ binding site [ion binding]; other site 1215088000254 G-X-G motif; other site 1215088000255 Outer membrane efflux protein; Region: OEP; pfam02321 1215088000256 Outer membrane efflux protein; Region: OEP; pfam02321 1215088000257 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1215088000258 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088000259 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1215088000260 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1215088000261 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1215088000262 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1215088000263 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1215088000264 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1215088000265 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1215088000266 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1215088000267 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1215088000268 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 1215088000269 metal-binding site [ion binding] 1215088000270 YHS domain; Region: YHS; pfam04945 1215088000271 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1215088000272 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1215088000273 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 1215088000274 motif II; other site 1215088000275 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1215088000276 ATP binding site [chemical binding]; other site 1215088000277 Mg2+ binding site [ion binding]; other site 1215088000278 G-X-G motif; other site 1215088000279 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1215088000280 putative metal dependent hydrolase; Provisional; Region: PRK11598 1215088000281 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1215088000282 Sulfatase; Region: Sulfatase; pfam00884 1215088000283 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1215088000284 hypothetical protein; Provisional; Region: PRK09272 1215088000285 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1215088000286 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1215088000287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088000288 active site 1215088000289 phosphorylation site [posttranslational modification] 1215088000290 intermolecular recognition site; other site 1215088000291 dimerization interface [polypeptide binding]; other site 1215088000292 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 1215088000293 DNA binding site [nucleotide binding] 1215088000294 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1215088000295 HAMP domain; Region: HAMP; pfam00672 1215088000296 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 1215088000297 dimer interface [polypeptide binding]; other site 1215088000298 phosphorylation site [posttranslational modification] 1215088000299 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 1215088000300 ATP binding site [chemical binding]; other site 1215088000301 Mg2+ binding site [ion binding]; other site 1215088000302 G-X-G motif; other site 1215088000303 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1215088000304 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1215088000305 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1215088000306 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1215088000307 Ligand binding site; other site 1215088000308 Putative Catalytic site; other site 1215088000309 DXD motif; other site 1215088000310 Membrane protein of unknown function; Region: DUF360; pfam04020 1215088000311 Predicted membrane protein [Function unknown]; Region: COG2246 1215088000312 GtrA-like protein; Region: GtrA; pfam04138 1215088000313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088000314 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088000315 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1215088000316 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 1215088000317 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1215088000318 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1215088000319 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1215088000320 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1215088000321 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1215088000322 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1215088000323 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1215088000324 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088000325 Outer membrane efflux protein; Region: OEP; pfam02321 1215088000326 Outer membrane efflux protein; Region: OEP; pfam02321 1215088000327 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088000328 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1215088000329 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088000330 active site 1215088000331 phosphorylation site [posttranslational modification] 1215088000332 intermolecular recognition site; other site 1215088000333 dimerization interface [polypeptide binding]; other site 1215088000334 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 1215088000335 DNA binding site [nucleotide binding] 1215088000336 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 1215088000337 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1215088000338 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 1215088000339 ATP binding site [chemical binding]; other site 1215088000340 putative Mg++ binding site [ion binding]; other site 1215088000341 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 1215088000342 nucleotide binding region [chemical binding]; other site 1215088000343 ATP-binding site [chemical binding]; other site 1215088000344 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 1215088000345 non-specific DNA binding site [nucleotide binding]; other site 1215088000346 salt bridge; other site 1215088000347 sequence-specific DNA binding site [nucleotide binding]; other site 1215088000348 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 1215088000349 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1215088000350 PAS fold; Region: PAS_4; pfam08448 1215088000351 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 1215088000352 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1215088000353 Walker A motif; other site 1215088000354 ATP binding site [chemical binding]; other site 1215088000355 Walker B motif; other site 1215088000356 arginine finger; other site 1215088000357 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088000358 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1215088000359 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1215088000360 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1215088000361 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1215088000362 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088000363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088000364 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 1215088000365 dimerization interface [polypeptide binding]; other site 1215088000366 choline dehydrogenase; Validated; Region: PRK02106 1215088000367 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1215088000368 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088000369 putative substrate translocation pore; other site 1215088000370 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1215088000371 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1215088000372 putative acyl-acceptor binding pocket; other site 1215088000373 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1215088000374 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 1215088000375 active site 1215088000376 motif I; other site 1215088000377 motif II; other site 1215088000378 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1215088000379 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1215088000380 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 1215088000381 dimer interface [polypeptide binding]; other site 1215088000382 motif 1; other site 1215088000383 active site 1215088000384 motif 2; other site 1215088000385 motif 3; other site 1215088000386 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1215088000387 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1215088000388 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1215088000389 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1215088000390 putative acyl-acceptor binding pocket; other site 1215088000391 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 1215088000392 TPR motif; other site 1215088000393 TPR repeat; Region: TPR_11; pfam13414 1215088000394 binding surface 1215088000395 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1215088000396 TrkA-N domain; Region: TrkA_N; pfam02254 1215088000397 TrkA-C domain; Region: TrkA_C; pfam02080 1215088000398 TrkA-N domain; Region: TrkA_N; pfam02254 1215088000399 TrkA-C domain; Region: TrkA_C; pfam02080 1215088000400 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1215088000401 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 1215088000402 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 1215088000403 S-adenosylmethionine binding site [chemical binding]; other site 1215088000404 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1215088000405 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1215088000406 putative active site [active] 1215088000407 substrate binding site [chemical binding]; other site 1215088000408 putative cosubstrate binding site; other site 1215088000409 catalytic site [active] 1215088000410 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1215088000411 substrate binding site [chemical binding]; other site 1215088000412 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 1215088000413 active site 1215088000414 catalytic residues [active] 1215088000415 metal binding site [ion binding]; metal-binding site 1215088000416 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1215088000417 DNA protecting protein DprA; Region: dprA; TIGR00732 1215088000418 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1215088000419 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1215088000420 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1215088000421 NADP binding site [chemical binding]; other site 1215088000422 dimer interface [polypeptide binding]; other site 1215088000423 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1215088000424 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1215088000425 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1215088000426 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1215088000427 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1215088000428 shikimate binding site; other site 1215088000429 NAD(P) binding site [chemical binding]; other site 1215088000430 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1215088000431 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1215088000432 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1215088000433 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 1215088000434 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1215088000435 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1215088000436 Sulfatase; Region: Sulfatase; cl17466 1215088000437 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1215088000438 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1215088000439 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1215088000440 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088000441 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 1215088000442 dimerization interface [polypeptide binding]; other site 1215088000443 substrate binding pocket [chemical binding]; other site 1215088000444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088000445 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1215088000446 NAD(P) binding site [chemical binding]; other site 1215088000447 active site 1215088000448 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 1215088000449 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1215088000450 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 1215088000451 substrate binding site [chemical binding]; other site 1215088000452 active site 1215088000453 catalytic residues [active] 1215088000454 heterodimer interface [polypeptide binding]; other site 1215088000455 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1215088000456 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 1215088000457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088000458 catalytic residue [active] 1215088000459 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1215088000460 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088000461 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 1215088000462 dimerization interface [polypeptide binding]; other site 1215088000463 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1215088000464 Dodecin; Region: Dodecin; pfam07311 1215088000465 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1215088000466 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1215088000467 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1215088000468 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1215088000469 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1215088000470 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1215088000471 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 1215088000472 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1215088000473 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 1215088000474 active site 1215088000475 motif I; other site 1215088000476 motif II; other site 1215088000477 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1215088000478 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 1215088000479 trimer interface [polypeptide binding]; other site 1215088000480 putative metal binding site [ion binding]; other site 1215088000481 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1215088000482 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1215088000483 active site 1215088000484 Zn binding site [ion binding]; other site 1215088000485 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1215088000486 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1215088000487 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1215088000488 Zn binding site [ion binding]; other site 1215088000489 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1215088000490 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 1215088000491 FeS/SAM binding site; other site 1215088000492 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 1215088000493 active site clefts [active] 1215088000494 zinc binding site [ion binding]; other site 1215088000495 dimer interface [polypeptide binding]; other site 1215088000496 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1215088000497 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1215088000498 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1215088000499 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 1215088000500 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1215088000501 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1215088000502 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1215088000503 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1215088000504 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1215088000505 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1215088000506 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 1215088000507 Subunit I/III interface [polypeptide binding]; other site 1215088000508 D-pathway; other site 1215088000509 Subunit I/VIIc interface [polypeptide binding]; other site 1215088000510 Subunit I/IV interface [polypeptide binding]; other site 1215088000511 Subunit I/II interface [polypeptide binding]; other site 1215088000512 Low-spin heme (heme a) binding site [chemical binding]; other site 1215088000513 Subunit I/VIIa interface [polypeptide binding]; other site 1215088000514 Subunit I/VIa interface [polypeptide binding]; other site 1215088000515 Dimer interface; other site 1215088000516 Putative water exit pathway; other site 1215088000517 Binuclear center (heme a3/CuB) [ion binding]; other site 1215088000518 K-pathway; other site 1215088000519 Subunit I/Vb interface [polypeptide binding]; other site 1215088000520 Putative proton exit pathway; other site 1215088000521 Subunit I/VIb interface; other site 1215088000522 Subunit I/VIc interface [polypeptide binding]; other site 1215088000523 Electron transfer pathway; other site 1215088000524 Subunit I/VIIIb interface [polypeptide binding]; other site 1215088000525 Subunit I/VIIb interface [polypeptide binding]; other site 1215088000526 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1215088000527 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 1215088000528 Subunit III/VIIa interface [polypeptide binding]; other site 1215088000529 Phospholipid binding site [chemical binding]; other site 1215088000530 Subunit I/III interface [polypeptide binding]; other site 1215088000531 Subunit III/VIb interface [polypeptide binding]; other site 1215088000532 Subunit III/VIa interface; other site 1215088000533 Subunit III/Vb interface [polypeptide binding]; other site 1215088000534 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1215088000535 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 1215088000536 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1215088000537 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1215088000538 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1215088000539 UbiA prenyltransferase family; Region: UbiA; pfam01040 1215088000540 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 1215088000541 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1215088000542 Cu(I) binding site [ion binding]; other site 1215088000543 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1215088000544 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1215088000545 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 1215088000546 dimer interface [polypeptide binding]; other site 1215088000547 conserved gate region; other site 1215088000548 ABC-ATPase subunit interface; other site 1215088000549 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1215088000550 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1215088000551 Walker A/P-loop; other site 1215088000552 ATP binding site [chemical binding]; other site 1215088000553 Q-loop/lid; other site 1215088000554 ABC transporter signature motif; other site 1215088000555 Walker B; other site 1215088000556 D-loop; other site 1215088000557 H-loop/switch region; other site 1215088000558 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 1215088000559 hydroperoxidase II; Provisional; Region: katE; PRK11249 1215088000560 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1215088000561 tetramer interface [polypeptide binding]; other site 1215088000562 heme binding pocket [chemical binding]; other site 1215088000563 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1215088000564 domain interactions; other site 1215088000565 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1215088000566 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 1215088000567 ABC-ATPase subunit interface; other site 1215088000568 dimer interface [polypeptide binding]; other site 1215088000569 putative PBP binding regions; other site 1215088000570 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1215088000571 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1215088000572 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1215088000573 metal binding site 2 [ion binding]; metal-binding site 1215088000574 putative DNA binding helix; other site 1215088000575 metal binding site 1 [ion binding]; metal-binding site 1215088000576 dimer interface [polypeptide binding]; other site 1215088000577 structural Zn2+ binding site [ion binding]; other site 1215088000578 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1215088000579 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 1215088000580 metal binding site [ion binding]; metal-binding site 1215088000581 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1215088000582 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 1215088000583 putative active site [active] 1215088000584 putative substrate binding site [chemical binding]; other site 1215088000585 ATP binding site [chemical binding]; other site 1215088000586 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 1215088000587 DNA polymerase I; Provisional; Region: PRK05755 1215088000588 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1215088000589 active site 1215088000590 metal binding site 1 [ion binding]; metal-binding site 1215088000591 putative 5' ssDNA interaction site; other site 1215088000592 metal binding site 3; metal-binding site 1215088000593 metal binding site 2 [ion binding]; metal-binding site 1215088000594 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1215088000595 putative DNA binding site [nucleotide binding]; other site 1215088000596 putative metal binding site [ion binding]; other site 1215088000597 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 1215088000598 active site 1215088000599 catalytic site [active] 1215088000600 substrate binding site [chemical binding]; other site 1215088000601 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1215088000602 active site 1215088000603 DNA binding site [nucleotide binding] 1215088000604 catalytic site [active] 1215088000605 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1215088000606 G1 box; other site 1215088000607 GTP/Mg2+ binding site [chemical binding]; other site 1215088000608 Switch I region; other site 1215088000609 G2 box; other site 1215088000610 G3 box; other site 1215088000611 Switch II region; other site 1215088000612 G4 box; other site 1215088000613 G5 box; other site 1215088000614 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1215088000615 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1215088000616 Cytochrome c; Region: Cytochrom_C; cl11414 1215088000617 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 1215088000618 catalytic residues [active] 1215088000619 hinge region; other site 1215088000620 alpha helical domain; other site 1215088000621 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1215088000622 putative catalytic site [active] 1215088000623 putative metal binding site [ion binding]; other site 1215088000624 putative phosphate binding site [ion binding]; other site 1215088000625 putative catalytic site [active] 1215088000626 putative phosphate binding site [ion binding]; other site 1215088000627 putative metal binding site [ion binding]; other site 1215088000628 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088000629 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088000630 metal binding site [ion binding]; metal-binding site 1215088000631 active site 1215088000632 I-site; other site 1215088000633 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1215088000634 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 1215088000635 amidase catalytic site [active] 1215088000636 Zn binding residues [ion binding]; other site 1215088000637 substrate binding site [chemical binding]; other site 1215088000638 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1215088000639 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1215088000640 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1215088000641 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 1215088000642 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 1215088000643 dimerization interface [polypeptide binding]; other site 1215088000644 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088000645 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 1215088000646 dimer interface [polypeptide binding]; other site 1215088000647 phosphorylation site [posttranslational modification] 1215088000648 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 1215088000649 ATP binding site [chemical binding]; other site 1215088000650 Mg2+ binding site [ion binding]; other site 1215088000651 G-X-G motif; other site 1215088000652 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1215088000653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088000654 active site 1215088000655 phosphorylation site [posttranslational modification] 1215088000656 intermolecular recognition site; other site 1215088000657 dimerization interface [polypeptide binding]; other site 1215088000658 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 1215088000659 Walker A motif; other site 1215088000660 ATP binding site [chemical binding]; other site 1215088000661 Walker B motif; other site 1215088000662 arginine finger; other site 1215088000663 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088000664 BON domain; Region: BON; pfam04972 1215088000665 BON domain; Region: BON; pfam04972 1215088000666 BON domain; Region: BON; pfam04972 1215088000667 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 1215088000668 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 1215088000669 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1215088000670 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1215088000671 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1215088000672 Protein of unknown function (DUF330); Region: DUF330; cl01135 1215088000673 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1215088000674 mce related protein; Region: MCE; pfam02470 1215088000675 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1215088000676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088000677 Walker A/P-loop; other site 1215088000678 ATP binding site [chemical binding]; other site 1215088000679 Q-loop/lid; other site 1215088000680 ABC transporter signature motif; other site 1215088000681 Walker B; other site 1215088000682 D-loop; other site 1215088000683 H-loop/switch region; other site 1215088000684 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1215088000685 Permease; Region: Permease; pfam02405 1215088000686 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 1215088000687 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1215088000688 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1215088000689 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1215088000690 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1215088000691 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1215088000692 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1215088000693 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1215088000694 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1215088000695 Citrate transporter; Region: CitMHS; pfam03600 1215088000696 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1215088000697 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1215088000698 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1215088000699 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1215088000700 conserverd hypothetical protein; Region: TIGR02448 1215088000701 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1215088000702 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1215088000703 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1215088000704 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1215088000705 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1215088000706 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1215088000707 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1215088000708 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1215088000709 ligand binding site [chemical binding]; other site 1215088000710 homodimer interface [polypeptide binding]; other site 1215088000711 NAD(P) binding site [chemical binding]; other site 1215088000712 trimer interface B [polypeptide binding]; other site 1215088000713 trimer interface A [polypeptide binding]; other site 1215088000714 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1215088000715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088000716 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 1215088000717 dimerization interface [polypeptide binding]; other site 1215088000718 substrate binding pocket [chemical binding]; other site 1215088000719 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1215088000720 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1215088000721 FAD binding site [chemical binding]; other site 1215088000722 substrate binding pocket [chemical binding]; other site 1215088000723 catalytic base [active] 1215088000724 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1215088000725 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1215088000726 Secretin and TonB N terminus short domain; Region: STN; smart00965 1215088000727 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1215088000728 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 1215088000729 N-terminal plug; other site 1215088000730 ligand-binding site [chemical binding]; other site 1215088000731 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1215088000732 FecR protein; Region: FecR; pfam04773 1215088000733 RNA polymerase sigma factor; Provisional; Region: PRK12528 1215088000734 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088000735 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1215088000736 DNA binding residues [nucleotide binding] 1215088000737 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1215088000738 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088000739 DNA-binding site [nucleotide binding]; DNA binding site 1215088000740 FCD domain; Region: FCD; pfam07729 1215088000741 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1215088000742 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 1215088000743 dimerization interface [polypeptide binding]; other site 1215088000744 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088000745 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088000746 metal binding site [ion binding]; metal-binding site 1215088000747 active site 1215088000748 I-site; other site 1215088000749 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 1215088000750 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1215088000751 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088000752 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088000753 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1215088000754 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 1215088000755 putative active site [active] 1215088000756 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1215088000757 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1215088000758 Walker A/P-loop; other site 1215088000759 ATP binding site [chemical binding]; other site 1215088000760 Q-loop/lid; other site 1215088000761 ABC transporter signature motif; other site 1215088000762 Walker B; other site 1215088000763 D-loop; other site 1215088000764 H-loop/switch region; other site 1215088000765 Calx-beta domain; Region: Calx-beta; cl02522 1215088000766 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 1215088000767 metal ion-dependent adhesion site (MIDAS); other site 1215088000768 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 1215088000769 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1215088000770 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 1215088000771 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1215088000772 NMT1-like family; Region: NMT1_2; pfam13379 1215088000773 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1215088000774 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1215088000775 Walker A/P-loop; other site 1215088000776 ATP binding site [chemical binding]; other site 1215088000777 Q-loop/lid; other site 1215088000778 ABC transporter signature motif; other site 1215088000779 Walker B; other site 1215088000780 D-loop; other site 1215088000781 H-loop/switch region; other site 1215088000782 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1215088000783 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 1215088000784 putative PBP binding loops; other site 1215088000785 ABC-ATPase subunit interface; other site 1215088000786 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1215088000787 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1215088000788 WYL domain; Region: WYL; pfam13280 1215088000789 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1215088000790 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1215088000791 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1215088000792 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1215088000793 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1215088000794 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1215088000795 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1215088000796 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088000797 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088000798 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1215088000799 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088000800 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1215088000801 Cytochrome c; Region: Cytochrom_C; pfam00034 1215088000802 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 1215088000803 TIGR02647 family protein; Region: DNA 1215088000804 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1215088000805 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 1215088000806 C-terminal domain interface [polypeptide binding]; other site 1215088000807 GSH binding site (G-site) [chemical binding]; other site 1215088000808 dimer interface [polypeptide binding]; other site 1215088000809 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1215088000810 N-terminal domain interface [polypeptide binding]; other site 1215088000811 argininosuccinate lyase; Provisional; Region: PRK00855 1215088000812 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1215088000813 active sites [active] 1215088000814 tetramer interface [polypeptide binding]; other site 1215088000815 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1215088000816 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088000817 active site 1215088000818 phosphorylation site [posttranslational modification] 1215088000819 intermolecular recognition site; other site 1215088000820 dimerization interface [polypeptide binding]; other site 1215088000821 LytTr DNA-binding domain; Region: LytTR; pfam04397 1215088000822 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1215088000823 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 1215088000824 domain interfaces; other site 1215088000825 active site 1215088000826 uroporphyrinogen-III synthase; Validated; Region: PRK05752 1215088000827 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 1215088000828 active site 1215088000829 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1215088000830 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1215088000831 HemY protein N-terminus; Region: HemY_N; pfam07219 1215088000832 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1215088000833 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 1215088000834 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1215088000835 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1215088000836 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1215088000837 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1215088000838 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1215088000839 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088000840 Walker A/P-loop; other site 1215088000841 ATP binding site [chemical binding]; other site 1215088000842 Q-loop/lid; other site 1215088000843 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1215088000844 ABC transporter signature motif; other site 1215088000845 Walker B; other site 1215088000846 D-loop; other site 1215088000847 ABC transporter; Region: ABC_tran_2; pfam12848 1215088000848 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1215088000849 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1215088000850 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1215088000851 LysE type translocator; Region: LysE; cl00565 1215088000852 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1215088000853 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 1215088000854 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1215088000855 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1215088000856 dimer interface [polypeptide binding]; other site 1215088000857 active site residues [active] 1215088000858 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1215088000859 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 1215088000860 putative deacylase active site [active] 1215088000861 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1215088000862 FOG: CBS domain [General function prediction only]; Region: COG0517 1215088000863 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 1215088000864 hypothetical protein; Provisional; Region: PRK06156 1215088000865 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1215088000866 active site 1215088000867 metal binding site [ion binding]; metal-binding site 1215088000868 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1215088000869 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088000870 DNA-binding site [nucleotide binding]; DNA binding site 1215088000871 UTRA domain; Region: UTRA; pfam07702 1215088000872 putative oxidoreductase; Provisional; Region: PRK08275 1215088000873 L-aspartate oxidase; Provisional; Region: PRK06175 1215088000874 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1215088000875 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1215088000876 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1215088000877 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 1215088000878 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1215088000879 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1215088000880 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 1215088000881 dimer interface [polypeptide binding]; other site 1215088000882 conserved gate region; other site 1215088000883 putative PBP binding loops; other site 1215088000884 ABC-ATPase subunit interface; other site 1215088000885 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1215088000886 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1215088000887 Walker A/P-loop; other site 1215088000888 ATP binding site [chemical binding]; other site 1215088000889 Q-loop/lid; other site 1215088000890 ABC transporter signature motif; other site 1215088000891 Walker B; other site 1215088000892 D-loop; other site 1215088000893 H-loop/switch region; other site 1215088000894 Protein of unknown function (DUF971); Region: DUF971; pfam06155 1215088000895 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1215088000896 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1215088000897 Walker A/P-loop; other site 1215088000898 ATP binding site [chemical binding]; other site 1215088000899 Q-loop/lid; other site 1215088000900 ABC transporter signature motif; other site 1215088000901 Walker B; other site 1215088000902 D-loop; other site 1215088000903 H-loop/switch region; other site 1215088000904 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1215088000905 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 1215088000906 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 1215088000907 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1215088000908 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1215088000909 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 1215088000910 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1215088000911 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 1215088000912 active site 1215088000913 iron coordination sites [ion binding]; other site 1215088000914 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088000915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088000916 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1215088000917 dimerization interface [polypeptide binding]; other site 1215088000918 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1215088000919 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 1215088000920 N-terminal plug; other site 1215088000921 ligand-binding site [chemical binding]; other site 1215088000922 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 1215088000923 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1215088000924 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1215088000925 tetramerization interface [polypeptide binding]; other site 1215088000926 NAD(P) binding site [chemical binding]; other site 1215088000927 catalytic residues [active] 1215088000928 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 1215088000929 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 1215088000930 inhibitor-cofactor binding pocket; inhibition site 1215088000931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088000932 catalytic residue [active] 1215088000933 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1215088000934 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088000935 active site 1215088000936 phosphorylation site [posttranslational modification] 1215088000937 intermolecular recognition site; other site 1215088000938 dimerization interface [polypeptide binding]; other site 1215088000939 HDOD domain; Region: HDOD; pfam08668 1215088000940 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 1215088000941 PAS fold; Region: PAS_3; pfam08447 1215088000942 putative active site [active] 1215088000943 heme pocket [chemical binding]; other site 1215088000944 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088000945 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088000946 metal binding site [ion binding]; metal-binding site 1215088000947 active site 1215088000948 I-site; other site 1215088000949 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1215088000950 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 1215088000951 Di-iron ligands [ion binding]; other site 1215088000952 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 1215088000953 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1215088000954 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 1215088000955 PAS domain; Region: PAS_9; pfam13426 1215088000956 putative active site [active] 1215088000957 heme pocket [chemical binding]; other site 1215088000958 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088000959 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088000960 metal binding site [ion binding]; metal-binding site 1215088000961 active site 1215088000962 I-site; other site 1215088000963 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 1215088000964 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 1215088000965 dimer interface [polypeptide binding]; other site 1215088000966 conserved gate region; other site 1215088000967 putative PBP binding loops; other site 1215088000968 ABC-ATPase subunit interface; other site 1215088000969 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1215088000970 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1215088000971 Walker A/P-loop; other site 1215088000972 ATP binding site [chemical binding]; other site 1215088000973 Q-loop/lid; other site 1215088000974 ABC transporter signature motif; other site 1215088000975 Walker B; other site 1215088000976 D-loop; other site 1215088000977 H-loop/switch region; other site 1215088000978 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 1215088000979 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1215088000980 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1215088000981 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 1215088000982 active site 1215088000983 non-prolyl cis peptide bond; other site 1215088000984 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1215088000985 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1215088000986 Flavin binding site [chemical binding]; other site 1215088000987 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1215088000988 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088000989 active site 1215088000990 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 1215088000991 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1215088000992 Walker A/P-loop; other site 1215088000993 ATP binding site [chemical binding]; other site 1215088000994 Q-loop/lid; other site 1215088000995 ABC transporter signature motif; other site 1215088000996 Walker B; other site 1215088000997 D-loop; other site 1215088000998 H-loop/switch region; other site 1215088000999 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 1215088001000 dimer interface [polypeptide binding]; other site 1215088001001 conserved gate region; other site 1215088001002 putative PBP binding loops; other site 1215088001003 ABC-ATPase subunit interface; other site 1215088001004 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088001005 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 1215088001006 substrate binding pocket [chemical binding]; other site 1215088001007 membrane-bound complex binding site; other site 1215088001008 hinge residues; other site 1215088001009 serine O-acetyltransferase; Region: cysE; TIGR01172 1215088001010 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 1215088001011 trimer interface [polypeptide binding]; other site 1215088001012 active site 1215088001013 substrate binding site [chemical binding]; other site 1215088001014 CoA binding site [chemical binding]; other site 1215088001015 BCCT family transporter; Region: BCCT; cl00569 1215088001016 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1215088001017 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 1215088001018 active site 1215088001019 iron coordination sites [ion binding]; other site 1215088001020 substrate binding pocket [chemical binding]; other site 1215088001021 potential frameshift: common BLAST hit: gi|339485161|ref|YP_004699689.1| binding-protein-dependent transport system inner membrane protein 1215088001022 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 1215088001023 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1215088001024 Walker A/P-loop; other site 1215088001025 ATP binding site [chemical binding]; other site 1215088001026 Q-loop/lid; other site 1215088001027 ABC transporter signature motif; other site 1215088001028 Walker B; other site 1215088001029 D-loop; other site 1215088001030 H-loop/switch region; other site 1215088001031 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 1215088001032 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 1215088001033 substrate binding pocket [chemical binding]; other site 1215088001034 membrane-bound complex binding site; other site 1215088001035 hinge residues; other site 1215088001036 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088001037 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1215088001038 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 1215088001039 dimer interface [polypeptide binding]; other site 1215088001040 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1215088001041 catalytic triad [active] 1215088001042 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 1215088001043 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1215088001044 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1215088001045 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 1215088001046 substrate binding pocket [chemical binding]; other site 1215088001047 membrane-bound complex binding site; other site 1215088001048 hinge residues; other site 1215088001049 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1215088001050 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 1215088001051 active site 1215088001052 dimer interface [polypeptide binding]; other site 1215088001053 non-prolyl cis peptide bond; other site 1215088001054 insertion regions; other site 1215088001055 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1215088001056 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 1215088001057 dimer interface [polypeptide binding]; other site 1215088001058 conserved gate region; other site 1215088001059 putative PBP binding loops; other site 1215088001060 ABC-ATPase subunit interface; other site 1215088001061 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1215088001062 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1215088001063 Walker A/P-loop; other site 1215088001064 ATP binding site [chemical binding]; other site 1215088001065 Q-loop/lid; other site 1215088001066 ABC transporter signature motif; other site 1215088001067 Walker B; other site 1215088001068 D-loop; other site 1215088001069 H-loop/switch region; other site 1215088001070 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1215088001071 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088001072 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088001073 glutamate--cysteine ligase; Provisional; Region: PRK02107 1215088001074 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 1215088001075 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1215088001076 CoenzymeA binding site [chemical binding]; other site 1215088001077 subunit interaction site [polypeptide binding]; other site 1215088001078 PHB binding site; other site 1215088001079 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1215088001080 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1215088001081 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1215088001082 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 1215088001083 RNA binding site [nucleotide binding]; other site 1215088001084 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1215088001085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088001086 active site 1215088001087 phosphorylation site [posttranslational modification] 1215088001088 intermolecular recognition site; other site 1215088001089 dimerization interface [polypeptide binding]; other site 1215088001090 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 1215088001091 DNA binding site [nucleotide binding] 1215088001092 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1215088001093 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 1215088001094 dimerization interface [polypeptide binding]; other site 1215088001095 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 1215088001096 ATP binding site [chemical binding]; other site 1215088001097 Mg2+ binding site [ion binding]; other site 1215088001098 G-X-G motif; other site 1215088001099 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1215088001100 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1215088001101 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1215088001102 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 1215088001103 RNA binding surface [nucleotide binding]; other site 1215088001104 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 1215088001105 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1215088001106 active site 1215088001107 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1215088001108 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 1215088001109 dimerization interface [polypeptide binding]; other site 1215088001110 domain crossover interface; other site 1215088001111 redox-dependent activation switch; other site 1215088001112 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1215088001113 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 1215088001114 active site 1215088001115 substrate-binding site [chemical binding]; other site 1215088001116 metal-binding site [ion binding] 1215088001117 ATP binding site [chemical binding]; other site 1215088001118 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 1215088001119 active site 1215088001120 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1215088001121 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 1215088001122 putative molybdopterin cofactor binding site [chemical binding]; other site 1215088001123 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 1215088001124 putative molybdopterin cofactor binding site; other site 1215088001125 Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]; Region: FdhD; COG1526 1215088001126 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1215088001127 BON domain; Region: BON; pfam04972 1215088001128 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1215088001129 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1215088001130 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 1215088001131 motif II; other site 1215088001132 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1215088001133 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 1215088001134 dimer interface [polypeptide binding]; other site 1215088001135 ADP-ribose binding site [chemical binding]; other site 1215088001136 active site 1215088001137 nudix motif; other site 1215088001138 metal binding site [ion binding]; metal-binding site 1215088001139 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1215088001140 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 1215088001141 active site 1215088001142 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1215088001143 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1215088001144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088001145 active site 1215088001146 phosphorylation site [posttranslational modification] 1215088001147 intermolecular recognition site; other site 1215088001148 dimerization interface [polypeptide binding]; other site 1215088001149 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 1215088001150 Walker A motif; other site 1215088001151 ATP binding site [chemical binding]; other site 1215088001152 Walker B motif; other site 1215088001153 arginine finger; other site 1215088001154 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1215088001155 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1215088001156 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 1215088001157 dimer interface [polypeptide binding]; other site 1215088001158 phosphorylation site [posttranslational modification] 1215088001159 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 1215088001160 ATP binding site [chemical binding]; other site 1215088001161 G-X-G motif; other site 1215088001162 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1215088001163 agmatine deiminase; Provisional; Region: PRK13551 1215088001164 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1215088001165 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1215088001166 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 1215088001167 N-terminal plug; other site 1215088001168 ligand-binding site [chemical binding]; other site 1215088001169 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088001170 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1215088001171 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 1215088001172 active site 1215088001173 FMN binding site [chemical binding]; other site 1215088001174 substrate binding site [chemical binding]; other site 1215088001175 3Fe-4S cluster binding site [ion binding]; other site 1215088001176 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1215088001177 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 1215088001178 ATP binding site [chemical binding]; other site 1215088001179 Mg2+ binding site [ion binding]; other site 1215088001180 G-X-G motif; other site 1215088001181 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1215088001182 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088001183 active site 1215088001184 phosphorylation site [posttranslational modification] 1215088001185 intermolecular recognition site; other site 1215088001186 dimerization interface [polypeptide binding]; other site 1215088001187 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 1215088001188 DNA binding site [nucleotide binding] 1215088001189 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1215088001190 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 1215088001191 N-terminal plug; other site 1215088001192 ligand-binding site [chemical binding]; other site 1215088001193 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1215088001194 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088001195 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1215088001196 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088001197 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 1215088001198 dimer interface [polypeptide binding]; other site 1215088001199 conserved gate region; other site 1215088001200 putative PBP binding loops; other site 1215088001201 ABC-ATPase subunit interface; other site 1215088001202 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088001203 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 1215088001204 dimer interface [polypeptide binding]; other site 1215088001205 conserved gate region; other site 1215088001206 putative PBP binding loops; other site 1215088001207 ABC-ATPase subunit interface; other site 1215088001208 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088001209 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 1215088001210 substrate binding pocket [chemical binding]; other site 1215088001211 membrane-bound complex binding site; other site 1215088001212 hinge residues; other site 1215088001213 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1215088001214 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1215088001215 Walker A/P-loop; other site 1215088001216 ATP binding site [chemical binding]; other site 1215088001217 Q-loop/lid; other site 1215088001218 ABC transporter signature motif; other site 1215088001219 Walker B; other site 1215088001220 D-loop; other site 1215088001221 H-loop/switch region; other site 1215088001222 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1215088001223 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1215088001224 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1215088001225 oxidative damage protection protein; Provisional; Region: PRK05408 1215088001226 adenine DNA glycosylase; Provisional; Region: PRK10880 1215088001227 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1215088001228 minor groove reading motif; other site 1215088001229 helix-hairpin-helix signature motif; other site 1215088001230 substrate binding pocket [chemical binding]; other site 1215088001231 active site 1215088001232 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1215088001233 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 1215088001234 DNA binding and oxoG recognition site [nucleotide binding] 1215088001235 AsmA family; Region: AsmA; pfam05170 1215088001236 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1215088001237 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088001238 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088001239 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1215088001240 putative active site pocket [active] 1215088001241 4-fold oligomerization interface [polypeptide binding]; other site 1215088001242 metal binding residues [ion binding]; metal-binding site 1215088001243 3-fold/trimer interface [polypeptide binding]; other site 1215088001244 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1215088001245 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1215088001246 putative active site [active] 1215088001247 oxyanion strand; other site 1215088001248 catalytic triad [active] 1215088001249 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1215088001250 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 1215088001251 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1215088001252 catalytic residues [active] 1215088001253 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 1215088001254 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1215088001255 substrate binding site [chemical binding]; other site 1215088001256 glutamase interaction surface [polypeptide binding]; other site 1215088001257 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 1215088001258 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088001259 Walker A/P-loop; other site 1215088001260 ATP binding site [chemical binding]; other site 1215088001261 Q-loop/lid; other site 1215088001262 ABC transporter signature motif; other site 1215088001263 Walker B; other site 1215088001264 D-loop; other site 1215088001265 H-loop/switch region; other site 1215088001266 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 1215088001267 dimer interface [polypeptide binding]; other site 1215088001268 conserved gate region; other site 1215088001269 putative PBP binding loops; other site 1215088001270 ABC-ATPase subunit interface; other site 1215088001271 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1215088001272 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1215088001273 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1215088001274 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1215088001275 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1215088001276 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1215088001277 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1215088001278 conserved cys residue [active] 1215088001279 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088001280 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 1215088001281 active site 1215088001282 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1215088001283 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1215088001284 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1215088001285 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1215088001286 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1215088001287 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1215088001288 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1215088001289 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1215088001290 conserved cys residue [active] 1215088001291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088001292 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 1215088001293 S-type Pyocin; Region: Pyocin_S; pfam06958 1215088001294 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 1215088001295 prolyl-tRNA synthetase, family I; Region: proS_fam_I; TIGR00408 1215088001296 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1215088001297 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1215088001298 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 1215088001299 active site 1215088001300 V4R domain; Region: V4R; cl15268 1215088001301 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1215088001302 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 1215088001303 putative active site [active] 1215088001304 putative FMN binding site [chemical binding]; other site 1215088001305 putative substrate binding site [chemical binding]; other site 1215088001306 putative catalytic residue [active] 1215088001307 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 1215088001308 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1215088001309 Cysteine-rich domain; Region: CCG; pfam02754 1215088001310 Cysteine-rich domain; Region: CCG; pfam02754 1215088001311 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 1215088001312 Ligand Binding Site [chemical binding]; other site 1215088001313 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1215088001314 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1215088001315 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 1215088001316 Ligand Binding Site [chemical binding]; other site 1215088001317 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1215088001318 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088001319 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1215088001320 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 1215088001321 [2Fe-2S] cluster binding site [ion binding]; other site 1215088001322 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 1215088001323 putative alpha subunit interface [polypeptide binding]; other site 1215088001324 putative active site [active] 1215088001325 putative substrate binding site [chemical binding]; other site 1215088001326 Fe binding site [ion binding]; other site 1215088001327 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1215088001328 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 1215088001329 FAD binding pocket [chemical binding]; other site 1215088001330 FAD binding motif [chemical binding]; other site 1215088001331 phosphate binding motif [ion binding]; other site 1215088001332 beta-alpha-beta structure motif; other site 1215088001333 NAD binding pocket [chemical binding]; other site 1215088001334 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 1215088001335 catalytic loop [active] 1215088001336 iron binding site [ion binding]; other site 1215088001337 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088001338 Transmembrane protein; Region: Macoilin; pfam09726 1215088001339 Cell division protein ZapA; Region: ZapA; pfam05164 1215088001340 Cache domain; Region: Cache_1; pfam02743 1215088001341 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 1215088001342 dimerization interface [polypeptide binding]; other site 1215088001343 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088001344 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088001345 dimer interface [polypeptide binding]; other site 1215088001346 putative CheW interface [polypeptide binding]; other site 1215088001347 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1215088001348 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 1215088001349 tetramer interface [polypeptide binding]; other site 1215088001350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088001351 catalytic residue [active] 1215088001352 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 1215088001353 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 1215088001354 dimer interface [polypeptide binding]; other site 1215088001355 active site 1215088001356 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1215088001357 folate binding site [chemical binding]; other site 1215088001358 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1215088001359 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088001360 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1215088001361 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1215088001362 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1215088001363 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1215088001364 sarcosine oxidase, gamma subunit family, heterotetrameric form; Region: soxG; TIGR01375 1215088001365 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1215088001366 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1215088001367 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1215088001368 putative active site [active] 1215088001369 putative substrate binding site [chemical binding]; other site 1215088001370 putative cosubstrate binding site; other site 1215088001371 catalytic site [active] 1215088001372 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1215088001373 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1215088001374 NAD binding site [chemical binding]; other site 1215088001375 catalytic Zn binding site [ion binding]; other site 1215088001376 structural Zn binding site [ion binding]; other site 1215088001377 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088001378 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088001379 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088001380 F-box-like; Region: F-box-like; cl02535 1215088001381 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 1215088001382 amino acid transporter; Region: 2A0306; TIGR00909 1215088001383 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1215088001384 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1215088001385 putative acyl-acceptor binding pocket; other site 1215088001386 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1215088001387 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1215088001388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088001389 active site 1215088001390 phosphorylation site [posttranslational modification] 1215088001391 intermolecular recognition site; other site 1215088001392 dimerization interface [polypeptide binding]; other site 1215088001393 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 1215088001394 DNA binding site [nucleotide binding] 1215088001395 sensory histidine kinase CreC; Provisional; Region: PRK11100 1215088001396 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 1215088001397 dimer interface [polypeptide binding]; other site 1215088001398 phosphorylation site [posttranslational modification] 1215088001399 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 1215088001400 ATP binding site [chemical binding]; other site 1215088001401 G-X-G motif; other site 1215088001402 inner membrane protein; Provisional; Region: PRK11715 1215088001403 putative glutathione S-transferase; Provisional; Region: PRK10357 1215088001404 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 1215088001405 putative C-terminal domain interface [polypeptide binding]; other site 1215088001406 putative GSH binding site (G-site) [chemical binding]; other site 1215088001407 putative dimer interface [polypeptide binding]; other site 1215088001408 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1215088001409 dimer interface [polypeptide binding]; other site 1215088001410 N-terminal domain interface [polypeptide binding]; other site 1215088001411 putative substrate binding pocket (H-site) [chemical binding]; other site 1215088001412 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1215088001413 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1215088001414 GAF domain; Region: GAF; pfam01590 1215088001415 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 1215088001416 PAS domain; Region: PAS_9; pfam13426 1215088001417 putative active site [active] 1215088001418 heme pocket [chemical binding]; other site 1215088001419 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088001420 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088001421 metal binding site [ion binding]; metal-binding site 1215088001422 active site 1215088001423 I-site; other site 1215088001424 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 1215088001425 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1215088001426 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 1215088001427 E3 interaction surface; other site 1215088001428 lipoyl attachment site [posttranslational modification]; other site 1215088001429 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 1215088001430 E3 interaction surface; other site 1215088001431 lipoyl attachment site [posttranslational modification]; other site 1215088001432 e3 binding domain; Region: E3_binding; pfam02817 1215088001433 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1215088001434 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1215088001435 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 1215088001436 dimer interface [polypeptide binding]; other site 1215088001437 TPP-binding site [chemical binding]; other site 1215088001438 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1215088001439 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1215088001440 metal binding triad; other site 1215088001441 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1215088001442 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1215088001443 metal binding triad; other site 1215088001444 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1215088001445 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1215088001446 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 1215088001447 putative active site [active] 1215088001448 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1215088001449 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 1215088001450 putative active site [active] 1215088001451 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1215088001452 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 1215088001453 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 1215088001454 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1215088001455 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1215088001456 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 1215088001457 active site 1215088001458 ATP binding site [chemical binding]; other site 1215088001459 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1215088001460 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 1215088001461 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1215088001462 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1215088001463 Secretin and TonB N terminus short domain; Region: STN; smart00965 1215088001464 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1215088001465 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 1215088001466 N-terminal plug; other site 1215088001467 ligand-binding site [chemical binding]; other site 1215088001468 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1215088001469 FecR protein; Region: FecR; pfam04773 1215088001470 RNA polymerase sigma factor; Reviewed; Region: PRK12523 1215088001471 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088001472 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 1215088001473 DNA binding residues [nucleotide binding] 1215088001474 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1215088001475 active site 1215088001476 catalytic site [active] 1215088001477 substrate binding site [chemical binding]; other site 1215088001478 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1215088001479 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 1215088001480 ligand binding site [chemical binding]; other site 1215088001481 flexible hinge region; other site 1215088001482 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1215088001483 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 1215088001484 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1215088001485 metal binding triad; other site 1215088001486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088001487 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088001488 active site 1215088001489 phosphorylation site [posttranslational modification] 1215088001490 intermolecular recognition site; other site 1215088001491 dimerization interface [polypeptide binding]; other site 1215088001492 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 1215088001493 active site 1215088001494 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1215088001495 ACT domain; Region: ACT_6; pfam13740 1215088001496 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1215088001497 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1215088001498 serine/threonine protein kinase; Provisional; Region: PRK11768 1215088001499 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1215088001500 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1215088001501 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1215088001502 TOBE domain; Region: TOBE; cl01440 1215088001503 TOBE domain; Region: TOBE; cl01440 1215088001504 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1215088001505 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1215088001506 active site 1215088001507 biotin synthase; Provisional; Region: PRK15108 1215088001508 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 1215088001509 FeS/SAM binding site; other site 1215088001510 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1215088001511 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1215088001512 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 1215088001513 substrate-cofactor binding pocket; other site 1215088001514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088001515 catalytic residue [active] 1215088001516 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1215088001517 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1215088001518 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 1215088001519 S-adenosylmethionine binding site [chemical binding]; other site 1215088001520 AAA domain; Region: AAA_26; pfam13500 1215088001521 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1215088001522 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1215088001523 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1215088001524 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088001525 active site 1215088001526 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1215088001527 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088001528 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088001529 metal binding site [ion binding]; metal-binding site 1215088001530 active site 1215088001531 I-site; other site 1215088001532 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1215088001533 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1215088001534 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088001535 active site 1215088001536 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1215088001537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088001538 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088001539 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 1215088001540 dimerization interface [polypeptide binding]; other site 1215088001541 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1215088001542 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 1215088001543 inhibitor-cofactor binding pocket; inhibition site 1215088001544 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088001545 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1215088001546 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1215088001547 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1215088001548 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1215088001549 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 1215088001550 FeS/SAM binding site; other site 1215088001551 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1215088001552 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1215088001553 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1215088001554 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1215088001555 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1215088001556 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 1215088001557 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 1215088001558 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1215088001559 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1215088001560 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1215088001561 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1215088001562 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 1215088001563 putative active site [active] 1215088001564 catalytic triad [active] 1215088001565 putative dimer interface [polypeptide binding]; other site 1215088001566 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1215088001567 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088001568 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1215088001569 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1215088001570 putative DNA binding site [nucleotide binding]; other site 1215088001571 putative Zn2+ binding site [ion binding]; other site 1215088001572 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088001573 LabA_like proteins; Region: LabA_like; cd06167 1215088001574 putative metal binding site [ion binding]; other site 1215088001575 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1215088001576 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088001577 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 1215088001578 substrate binding pocket [chemical binding]; other site 1215088001579 membrane-bound complex binding site; other site 1215088001580 hinge residues; other site 1215088001581 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1215088001582 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 1215088001583 putative active site [active] 1215088001584 heme pocket [chemical binding]; other site 1215088001585 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 1215088001586 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 1215088001587 putative active site [active] 1215088001588 heme pocket [chemical binding]; other site 1215088001589 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 1215088001590 putative active site [active] 1215088001591 heme pocket [chemical binding]; other site 1215088001592 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 1215088001593 putative active site [active] 1215088001594 heme pocket [chemical binding]; other site 1215088001595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088001596 metal binding site [ion binding]; metal-binding site 1215088001597 active site 1215088001598 I-site; other site 1215088001599 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 1215088001600 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1215088001601 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1215088001602 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1215088001603 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1215088001604 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088001605 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1215088001606 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 1215088001607 DNA binding residues [nucleotide binding] 1215088001608 DNA primase, catalytic core; Region: dnaG; TIGR01391 1215088001609 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1215088001610 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1215088001611 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 1215088001612 active site 1215088001613 metal binding site [ion binding]; metal-binding site 1215088001614 interdomain interaction site; other site 1215088001615 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1215088001616 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1215088001617 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1215088001618 UGMP family protein; Validated; Region: PRK09604 1215088001619 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1215088001620 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1215088001621 Dihydroneopterin aldolase; Region: FolB; smart00905 1215088001622 active site 1215088001623 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 1215088001624 catalytic center binding site [active] 1215088001625 ATP binding site [chemical binding]; other site 1215088001626 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1215088001627 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1215088001628 active site 1215088001629 NTP binding site [chemical binding]; other site 1215088001630 metal binding triad [ion binding]; metal-binding site 1215088001631 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1215088001632 SpoVR family protein; Provisional; Region: PRK11767 1215088001633 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1215088001634 hypothetical protein; Provisional; Region: PRK05325 1215088001635 PrkA family serine protein kinase; Provisional; Region: PRK15455 1215088001636 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1215088001637 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 1215088001638 active site residue [active] 1215088001639 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1215088001640 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1215088001641 active site 1215088001642 metal binding site [ion binding]; metal-binding site 1215088001643 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1215088001644 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1215088001645 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1215088001646 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1215088001647 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1215088001648 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1215088001649 SurA N-terminal domain; Region: SurA_N; pfam09312 1215088001650 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1215088001651 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1215088001652 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1215088001653 OstA-like protein; Region: OstA; cl00844 1215088001654 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1215088001655 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1215088001656 Phosphotransferase enzyme family; Region: APH; pfam01636 1215088001657 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 1215088001658 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1215088001659 Substrate binding site; other site 1215088001660 metal-binding site 1215088001661 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1215088001662 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1215088001663 putative metal binding site [ion binding]; other site 1215088001664 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 1215088001665 HSP70 interaction site [polypeptide binding]; other site 1215088001666 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1215088001667 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1215088001668 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 1215088001669 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088001670 substrate binding pocket [chemical binding]; other site 1215088001671 membrane-bound complex binding site; other site 1215088001672 hinge residues; other site 1215088001673 PAS domain; Region: PAS_9; pfam13426 1215088001674 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 1215088001675 putative active site [active] 1215088001676 heme pocket [chemical binding]; other site 1215088001677 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 1215088001678 PAS fold; Region: PAS_3; pfam08447 1215088001679 putative active site [active] 1215088001680 heme pocket [chemical binding]; other site 1215088001681 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1215088001682 Histidine kinase; Region: HisKA_3; pfam07730 1215088001683 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 1215088001684 ATP binding site [chemical binding]; other site 1215088001685 Mg2+ binding site [ion binding]; other site 1215088001686 G-X-G motif; other site 1215088001687 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088001688 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088001689 active site 1215088001690 phosphorylation site [posttranslational modification] 1215088001691 intermolecular recognition site; other site 1215088001692 dimerization interface [polypeptide binding]; other site 1215088001693 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 1215088001694 DNA binding residues [nucleotide binding] 1215088001695 dimerization interface [polypeptide binding]; other site 1215088001696 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1215088001697 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1215088001698 Walker A/P-loop; other site 1215088001699 ATP binding site [chemical binding]; other site 1215088001700 Q-loop/lid; other site 1215088001701 ABC transporter signature motif; other site 1215088001702 Walker B; other site 1215088001703 D-loop; other site 1215088001704 H-loop/switch region; other site 1215088001705 TOBE domain; Region: TOBE_2; pfam08402 1215088001706 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1215088001707 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1215088001708 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 1215088001709 dimer interface [polypeptide binding]; other site 1215088001710 conserved gate region; other site 1215088001711 putative PBP binding loops; other site 1215088001712 ABC-ATPase subunit interface; other site 1215088001713 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1215088001714 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 1215088001715 dimer interface [polypeptide binding]; other site 1215088001716 conserved gate region; other site 1215088001717 putative PBP binding loops; other site 1215088001718 ABC-ATPase subunit interface; other site 1215088001719 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 1215088001720 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1215088001721 substrate binding site [chemical binding]; other site 1215088001722 hexamer interface [polypeptide binding]; other site 1215088001723 metal binding site [ion binding]; metal-binding site 1215088001724 phosphoglycolate phosphatase; Provisional; Region: PRK13223 1215088001725 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1215088001726 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 1215088001727 motif II; other site 1215088001728 anthranilate synthase component I; Provisional; Region: PRK13565 1215088001729 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1215088001730 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1215088001731 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 1215088001732 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 1215088001733 active site 1215088001734 catalytic triad [active] 1215088001735 oxyanion hole [active] 1215088001736 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1215088001737 phosphoglycolate phosphatase; Provisional; Region: PRK13223 1215088001738 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1215088001739 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1215088001740 glutamine binding [chemical binding]; other site 1215088001741 catalytic triad [active] 1215088001742 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1215088001743 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1215088001744 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1215088001745 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 1215088001746 active site 1215088001747 ribulose/triose binding site [chemical binding]; other site 1215088001748 phosphate binding site [ion binding]; other site 1215088001749 substrate (anthranilate) binding pocket [chemical binding]; other site 1215088001750 product (indole) binding pocket [chemical binding]; other site 1215088001751 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1215088001752 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1215088001753 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 1215088001754 ligand binding site [chemical binding]; other site 1215088001755 flexible hinge region; other site 1215088001756 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 1215088001757 putative switch regulator; other site 1215088001758 non-specific DNA interactions [nucleotide binding]; other site 1215088001759 DNA binding site [nucleotide binding] 1215088001760 sequence specific DNA binding site [nucleotide binding]; other site 1215088001761 putative cAMP binding site [chemical binding]; other site 1215088001762 OsmC-like protein; Region: OsmC; cl00767 1215088001763 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1215088001764 diiron binding motif [ion binding]; other site 1215088001765 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 1215088001766 nucleotide binding site/active site [active] 1215088001767 HIT family signature motif; other site 1215088001768 catalytic residue [active] 1215088001769 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1215088001770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088001771 NAD(P) binding site [chemical binding]; other site 1215088001772 active site 1215088001773 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1215088001774 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 1215088001775 FMN binding site [chemical binding]; other site 1215088001776 substrate binding site [chemical binding]; other site 1215088001777 putative catalytic residue [active] 1215088001778 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1215088001779 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1215088001780 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1215088001781 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1215088001782 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1215088001783 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1215088001784 putative peptidase; Provisional; Region: PRK11649 1215088001785 Peptidase family M23; Region: Peptidase_M23; pfam01551 1215088001786 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1215088001787 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1215088001788 active site 1215088001789 HIGH motif; other site 1215088001790 dimer interface [polypeptide binding]; other site 1215088001791 KMSKS motif; other site 1215088001792 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1215088001793 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1215088001794 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1215088001795 pantothenate kinase; Reviewed; Region: PRK13322 1215088001796 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1215088001797 Switch II region; other site 1215088001798 G4 box; other site 1215088001799 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1215088001800 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 1215088001801 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 1215088001802 Antibiotic Binding Site [chemical binding]; other site 1215088001803 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1215088001804 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1215088001805 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1215088001806 putative homodimer interface [polypeptide binding]; other site 1215088001807 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1215088001808 heterodimer interface [polypeptide binding]; other site 1215088001809 homodimer interface [polypeptide binding]; other site 1215088001810 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1215088001811 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 1215088001812 23S rRNA interface [nucleotide binding]; other site 1215088001813 L7/L12 interface [polypeptide binding]; other site 1215088001814 putative thiostrepton binding site; other site 1215088001815 L25 interface [polypeptide binding]; other site 1215088001816 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 1215088001817 mRNA/rRNA interface [nucleotide binding]; other site 1215088001818 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 1215088001819 23S rRNA interface [nucleotide binding]; other site 1215088001820 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1215088001821 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 1215088001822 core dimer interface [polypeptide binding]; other site 1215088001823 peripheral dimer interface [polypeptide binding]; other site 1215088001824 L10 interface [polypeptide binding]; other site 1215088001825 L11 interface [polypeptide binding]; other site 1215088001826 putative EF-Tu interaction site [polypeptide binding]; other site 1215088001827 putative EF-G interaction site [polypeptide binding]; other site 1215088001828 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1215088001829 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 1215088001830 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1215088001831 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 1215088001832 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1215088001833 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 1215088001834 RPB3 interaction site [polypeptide binding]; other site 1215088001835 RPB1 interaction site [polypeptide binding]; other site 1215088001836 RPB11 interaction site [polypeptide binding]; other site 1215088001837 RPB10 interaction site [polypeptide binding]; other site 1215088001838 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1215088001839 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1215088001840 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1215088001841 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1215088001842 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1215088001843 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1215088001844 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1215088001845 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1215088001846 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1215088001847 DNA binding site [nucleotide binding] 1215088001848 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1215088001849 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 1215088001850 S17 interaction site [polypeptide binding]; other site 1215088001851 S8 interaction site; other site 1215088001852 16S rRNA interaction site [nucleotide binding]; other site 1215088001853 streptomycin interaction site [chemical binding]; other site 1215088001854 23S rRNA interaction site [nucleotide binding]; other site 1215088001855 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1215088001856 30S ribosomal protein S7; Validated; Region: PRK05302 1215088001857 elongation factor G; Reviewed; Region: PRK00007 1215088001858 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1215088001859 G1 box; other site 1215088001860 putative GEF interaction site [polypeptide binding]; other site 1215088001861 GTP/Mg2+ binding site [chemical binding]; other site 1215088001862 Switch I region; other site 1215088001863 G2 box; other site 1215088001864 G3 box; other site 1215088001865 Switch II region; other site 1215088001866 G4 box; other site 1215088001867 G5 box; other site 1215088001868 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 1215088001869 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 1215088001870 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 1215088001871 elongation factor Tu; Reviewed; Region: PRK00049 1215088001872 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1215088001873 G1 box; other site 1215088001874 GEF interaction site [polypeptide binding]; other site 1215088001875 GTP/Mg2+ binding site [chemical binding]; other site 1215088001876 Switch I region; other site 1215088001877 G2 box; other site 1215088001878 G3 box; other site 1215088001879 Switch II region; other site 1215088001880 G4 box; other site 1215088001881 G5 box; other site 1215088001882 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 1215088001883 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 1215088001884 Antibiotic Binding Site [chemical binding]; other site 1215088001885 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1215088001886 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1215088001887 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1215088001888 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1215088001889 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1215088001890 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1215088001891 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1215088001892 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1215088001893 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 1215088001894 protein-rRNA interface [nucleotide binding]; other site 1215088001895 putative translocon binding site; other site 1215088001896 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1215088001897 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 1215088001898 G-X-X-G motif; other site 1215088001899 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1215088001900 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 1215088001901 23S rRNA interface [nucleotide binding]; other site 1215088001902 5S rRNA interface [nucleotide binding]; other site 1215088001903 putative antibiotic binding site [chemical binding]; other site 1215088001904 L25 interface [polypeptide binding]; other site 1215088001905 L27 interface [polypeptide binding]; other site 1215088001906 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 1215088001907 23S rRNA interface [nucleotide binding]; other site 1215088001908 putative translocon interaction site; other site 1215088001909 signal recognition particle (SRP54) interaction site; other site 1215088001910 L23 interface [polypeptide binding]; other site 1215088001911 trigger factor interaction site; other site 1215088001912 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1215088001913 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1215088001914 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1215088001915 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1215088001916 RNA binding site [nucleotide binding]; other site 1215088001917 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1215088001918 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1215088001919 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1215088001920 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1215088001921 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1215088001922 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1215088001923 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1215088001924 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1215088001925 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 1215088001926 5S rRNA interface [nucleotide binding]; other site 1215088001927 23S rRNA interface [nucleotide binding]; other site 1215088001928 L5 interface [polypeptide binding]; other site 1215088001929 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1215088001930 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1215088001931 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1215088001932 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 1215088001933 23S rRNA binding site [nucleotide binding]; other site 1215088001934 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1215088001935 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1215088001936 SecY translocase; Region: SecY; pfam00344 1215088001937 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1215088001938 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1215088001939 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1215088001940 30S ribosomal protein S11; Validated; Region: PRK05309 1215088001941 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1215088001942 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1215088001943 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 1215088001944 RNA binding surface [nucleotide binding]; other site 1215088001945 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1215088001946 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1215088001947 alphaNTD homodimer interface [polypeptide binding]; other site 1215088001948 alphaNTD - beta interaction site [polypeptide binding]; other site 1215088001949 alphaNTD - beta' interaction site [polypeptide binding]; other site 1215088001950 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1215088001951 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1215088001952 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1215088001953 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1215088001954 tetramer interface [polypeptide binding]; other site 1215088001955 heme binding pocket [chemical binding]; other site 1215088001956 NADPH binding site [chemical binding]; other site 1215088001957 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1215088001958 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1215088001959 heme binding site [chemical binding]; other site 1215088001960 ferroxidase pore; other site 1215088001961 ferroxidase diiron center [ion binding]; other site 1215088001962 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1215088001963 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1215088001964 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1215088001965 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1215088001966 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088001967 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088001968 putative substrate translocation pore; other site 1215088001969 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1215088001970 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 1215088001971 dimer interface [polypeptide binding]; other site 1215088001972 ssDNA binding site [nucleotide binding]; other site 1215088001973 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1215088001974 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 1215088001975 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088001976 DNA-binding site [nucleotide binding]; DNA binding site 1215088001977 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 1215088001978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088001979 homodimer interface [polypeptide binding]; other site 1215088001980 catalytic residue [active] 1215088001981 hypothetical protein; Provisional; Region: PRK10621 1215088001982 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1215088001983 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1215088001984 malonic semialdehyde reductase; Provisional; Region: PRK10538 1215088001985 putative NAD(P) binding site [chemical binding]; other site 1215088001986 homotetramer interface [polypeptide binding]; other site 1215088001987 homodimer interface [polypeptide binding]; other site 1215088001988 active site 1215088001989 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 1215088001990 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 1215088001991 molybdopterin cofactor binding site; other site 1215088001992 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 1215088001993 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 1215088001994 molybdopterin cofactor binding site; other site 1215088001995 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1215088001996 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1215088001997 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 1215088001998 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1215088001999 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1215088002000 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1215088002001 selenocysteine synthase; Provisional; Region: PRK04311 1215088002002 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1215088002003 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1215088002004 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1215088002005 catalytic residue [active] 1215088002006 catalytic residue [active] 1215088002007 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1215088002008 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1215088002009 G1 box; other site 1215088002010 putative GEF interaction site [polypeptide binding]; other site 1215088002011 GTP/Mg2+ binding site [chemical binding]; other site 1215088002012 Switch I region; other site 1215088002013 G2 box; other site 1215088002014 G3 box; other site 1215088002015 Switch II region; other site 1215088002016 G4 box; other site 1215088002017 G5 box; other site 1215088002018 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 1215088002019 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 1215088002020 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1215088002021 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1215088002022 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1215088002023 active site 1215088002024 homodimer interface [polypeptide binding]; other site 1215088002025 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1215088002026 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1215088002027 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 1215088002028 sequence-specific DNA binding site [nucleotide binding]; other site 1215088002029 salt bridge; other site 1215088002030 hypothetical protein; Provisional; Region: PRK10621 1215088002031 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1215088002032 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 1215088002033 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1215088002034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088002035 NAD(P) binding site [chemical binding]; other site 1215088002036 active site 1215088002037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088002038 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1215088002039 NAD(P) binding site [chemical binding]; other site 1215088002040 active site 1215088002041 Predicted transcriptional regulators [Transcription]; Region: COG1733 1215088002042 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1215088002043 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1215088002044 OmpW family; Region: OmpW; cl17427 1215088002045 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1215088002046 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1215088002047 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1215088002048 FtsX-like permease family; Region: FtsX; pfam02687 1215088002049 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1215088002050 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1215088002051 Walker A/P-loop; other site 1215088002052 ATP binding site [chemical binding]; other site 1215088002053 Q-loop/lid; other site 1215088002054 ABC transporter signature motif; other site 1215088002055 Walker B; other site 1215088002056 D-loop; other site 1215088002057 H-loop/switch region; other site 1215088002058 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1215088002059 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1215088002060 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 1215088002061 Predicted methyltransferase [General function prediction only]; Region: COG3897 1215088002062 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 1215088002063 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1215088002064 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1215088002065 ATP cone domain; Region: ATP-cone; pfam03477 1215088002066 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1215088002067 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 1215088002068 catalytic motif [active] 1215088002069 Zn binding site [ion binding]; other site 1215088002070 RibD C-terminal domain; Region: RibD_C; cl17279 1215088002071 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1215088002072 Lumazine binding domain; Region: Lum_binding; pfam00677 1215088002073 Lumazine binding domain; Region: Lum_binding; pfam00677 1215088002074 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1215088002075 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1215088002076 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1215088002077 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 1215088002078 homopentamer interface [polypeptide binding]; other site 1215088002079 active site 1215088002080 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1215088002081 putative RNA binding site [nucleotide binding]; other site 1215088002082 thiamine monophosphate kinase; Provisional; Region: PRK05731 1215088002083 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 1215088002084 ATP binding site [chemical binding]; other site 1215088002085 dimerization interface [polypeptide binding]; other site 1215088002086 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1215088002087 tetramer interfaces [polypeptide binding]; other site 1215088002088 binuclear metal-binding site [ion binding]; other site 1215088002089 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088002090 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 1215088002091 membrane-bound complex binding site; other site 1215088002092 hinge residues; other site 1215088002093 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 1215088002094 dimerization interface [polypeptide binding]; other site 1215088002095 active site 1215088002096 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1215088002097 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 1215088002098 cobalamin binding residues [chemical binding]; other site 1215088002099 putative BtuC binding residues; other site 1215088002100 dimer interface [polypeptide binding]; other site 1215088002101 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1215088002102 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 1215088002103 TPP-binding site; other site 1215088002104 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 1215088002105 PYR/PP interface [polypeptide binding]; other site 1215088002106 dimer interface [polypeptide binding]; other site 1215088002107 TPP binding site [chemical binding]; other site 1215088002108 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1215088002109 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1215088002110 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1215088002111 substrate binding pocket [chemical binding]; other site 1215088002112 chain length determination region; other site 1215088002113 substrate-Mg2+ binding site; other site 1215088002114 catalytic residues [active] 1215088002115 aspartate-rich region 1; other site 1215088002116 active site lid residues [active] 1215088002117 aspartate-rich region 2; other site 1215088002118 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1215088002119 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 1215088002120 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1215088002121 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1215088002122 hypothetical protein; Reviewed; Region: PRK09588 1215088002123 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088002124 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1215088002125 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1215088002126 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1215088002127 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1215088002128 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1215088002129 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1215088002130 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1215088002131 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1215088002132 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1215088002133 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1215088002134 FtsX-like permease family; Region: FtsX; pfam02687 1215088002135 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1215088002136 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1215088002137 Walker A/P-loop; other site 1215088002138 ATP binding site [chemical binding]; other site 1215088002139 Q-loop/lid; other site 1215088002140 ABC transporter signature motif; other site 1215088002141 Walker B; other site 1215088002142 D-loop; other site 1215088002143 H-loop/switch region; other site 1215088002144 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1215088002145 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088002146 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 1215088002147 non-specific DNA binding site [nucleotide binding]; other site 1215088002148 salt bridge; other site 1215088002149 sequence-specific DNA binding site [nucleotide binding]; other site 1215088002150 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 1215088002151 dimer interface [polypeptide binding]; other site 1215088002152 substrate binding site [chemical binding]; other site 1215088002153 metal binding sites [ion binding]; metal-binding site 1215088002154 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1215088002155 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1215088002156 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1215088002157 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1215088002158 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088002159 Coenzyme A binding pocket [chemical binding]; other site 1215088002160 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1215088002161 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1215088002162 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1215088002163 ethanolamine permease; Region: 2A0305; TIGR00908 1215088002164 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1215088002165 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1215088002166 NAD(P) binding site [chemical binding]; other site 1215088002167 catalytic residues [active] 1215088002168 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1215088002169 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 1215088002170 Walker A motif; other site 1215088002171 ATP binding site [chemical binding]; other site 1215088002172 Walker B motif; other site 1215088002173 arginine finger; other site 1215088002174 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1215088002175 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1215088002176 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1215088002177 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1215088002178 aromatic acid decarboxylase; Validated; Region: PRK05920 1215088002179 Flavoprotein; Region: Flavoprotein; pfam02441 1215088002180 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 1215088002181 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1215088002182 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1215088002183 NAD binding site [chemical binding]; other site 1215088002184 active site 1215088002185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1215088002186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1215088002187 Peptidase C13 family; Region: Peptidase_C13; pfam01650 1215088002188 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 1215088002189 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1215088002190 putative NAD(P) binding site [chemical binding]; other site 1215088002191 catalytic Zn binding site [ion binding]; other site 1215088002192 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 1215088002193 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 1215088002194 E3 interaction surface; other site 1215088002195 lipoyl attachment site [posttranslational modification]; other site 1215088002196 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1215088002197 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 1215088002198 alpha subunit interface [polypeptide binding]; other site 1215088002199 TPP binding site [chemical binding]; other site 1215088002200 heterodimer interface [polypeptide binding]; other site 1215088002201 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1215088002202 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1215088002203 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 1215088002204 tetramer interface [polypeptide binding]; other site 1215088002205 TPP-binding site [chemical binding]; other site 1215088002206 heterodimer interface [polypeptide binding]; other site 1215088002207 phosphorylation loop region [posttranslational modification] 1215088002208 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1215088002209 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1215088002210 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1215088002211 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 1215088002212 Walker A motif; other site 1215088002213 ATP binding site [chemical binding]; other site 1215088002214 Walker B motif; other site 1215088002215 arginine finger; other site 1215088002216 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088002217 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1215088002218 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1215088002219 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1215088002220 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1215088002221 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1215088002222 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 1215088002223 carboxyltransferase (CT) interaction site; other site 1215088002224 biotinylation site [posttranslational modification]; other site 1215088002225 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 1215088002226 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1215088002227 active site 1215088002228 trimer interface [polypeptide binding]; other site 1215088002229 dimer interface [polypeptide binding]; other site 1215088002230 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1215088002231 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1215088002232 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 1215088002233 DsbD alpha interface [polypeptide binding]; other site 1215088002234 catalytic residues [active] 1215088002235 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1215088002236 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088002237 dimer interface [polypeptide binding]; other site 1215088002238 putative CheW interface [polypeptide binding]; other site 1215088002239 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088002240 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088002241 active site 1215088002242 phosphorylation site [posttranslational modification] 1215088002243 intermolecular recognition site; other site 1215088002244 dimerization interface [polypeptide binding]; other site 1215088002245 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088002246 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088002247 metal binding site [ion binding]; metal-binding site 1215088002248 active site 1215088002249 I-site; other site 1215088002250 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1215088002251 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 1215088002252 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_38; cd04697 1215088002253 nudix motif; other site 1215088002254 translation initiation factor Sui1; Validated; Region: PRK06824 1215088002255 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1215088002256 putative rRNA binding site [nucleotide binding]; other site 1215088002257 arginine decarboxylase; Provisional; Region: PRK05354 1215088002258 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1215088002259 dimer interface [polypeptide binding]; other site 1215088002260 active site 1215088002261 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1215088002262 catalytic residues [active] 1215088002263 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1215088002264 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1215088002265 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1215088002266 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1215088002267 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1215088002268 MG2 domain; Region: A2M_N; pfam01835 1215088002269 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1215088002270 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 1215088002271 surface patch; other site 1215088002272 thioester region; other site 1215088002273 specificity defining residues; other site 1215088002274 penicillin-binding protein 1C; Provisional; Region: PRK11240 1215088002275 Transglycosylase; Region: Transgly; pfam00912 1215088002276 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1215088002277 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1215088002278 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1215088002279 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1215088002280 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088002281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088002282 active site 1215088002283 phosphorylation site [posttranslational modification] 1215088002284 intermolecular recognition site; other site 1215088002285 dimerization interface [polypeptide binding]; other site 1215088002286 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 1215088002287 DNA binding residues [nucleotide binding] 1215088002288 dimerization interface [polypeptide binding]; other site 1215088002289 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1215088002290 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1215088002291 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1215088002292 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 1215088002293 S-adenosylmethionine binding site [chemical binding]; other site 1215088002294 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 1215088002295 homodimer interface [polypeptide binding]; other site 1215088002296 chemical substrate binding site [chemical binding]; other site 1215088002297 oligomer interface [polypeptide binding]; other site 1215088002298 metal binding site [ion binding]; metal-binding site 1215088002299 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 1215088002300 active site 2 [active] 1215088002301 active site 1 [active] 1215088002302 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 1215088002303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088002304 NAD(P) binding site [chemical binding]; other site 1215088002305 active site 1215088002306 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 1215088002307 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 1215088002308 dimer interface [polypeptide binding]; other site 1215088002309 active site 1215088002310 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1215088002311 Cache domain; Region: Cache_1; pfam02743 1215088002312 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 1215088002313 dimerization interface [polypeptide binding]; other site 1215088002314 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088002315 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088002316 dimer interface [polypeptide binding]; other site 1215088002317 putative CheW interface [polypeptide binding]; other site 1215088002318 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1215088002319 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1215088002320 DNA binding residues [nucleotide binding] 1215088002321 dimer interface [polypeptide binding]; other site 1215088002322 copper binding site [ion binding]; other site 1215088002323 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1215088002324 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 1215088002325 metal-binding site [ion binding] 1215088002326 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1215088002327 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 1215088002328 metal-binding site [ion binding] 1215088002329 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1215088002330 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 1215088002331 metal-binding site [ion binding] 1215088002332 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088002333 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1215088002334 putative substrate translocation pore; other site 1215088002335 PknH-like extracellular domain; Region: PknH_C; pfam14032 1215088002336 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1215088002337 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 1215088002338 active site 1215088002339 purine riboside binding site [chemical binding]; other site 1215088002340 short chain dehydrogenase; Provisional; Region: PRK08177 1215088002341 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1215088002342 NAD(P) binding site [chemical binding]; other site 1215088002343 active site 1215088002344 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1215088002345 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1215088002346 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1215088002347 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1215088002348 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088002349 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1215088002350 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088002351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088002352 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 1215088002353 dimerization interface [polypeptide binding]; other site 1215088002354 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1215088002355 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 1215088002356 inhibitor-cofactor binding pocket; inhibition site 1215088002357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088002358 catalytic residue [active] 1215088002359 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1215088002360 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1215088002361 tetrameric interface [polypeptide binding]; other site 1215088002362 NAD binding site [chemical binding]; other site 1215088002363 catalytic residues [active] 1215088002364 Paraquat-inducible protein A; Region: PqiA; pfam04403 1215088002365 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1215088002366 Paraquat-inducible protein A; Region: PqiA; pfam04403 1215088002367 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1215088002368 mce related protein; Region: MCE; pfam02470 1215088002369 mce related protein; Region: MCE; pfam02470 1215088002370 mce related protein; Region: MCE; pfam02470 1215088002371 mce related protein; Region: MCE; pfam02470 1215088002372 mce related protein; Region: MCE; pfam02470 1215088002373 mce related protein; Region: MCE; pfam02470 1215088002374 urocanate hydratase; Provisional; Region: PRK05414 1215088002375 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1215088002376 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1215088002377 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1215088002378 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1215088002379 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1215088002380 active site 1215088002381 Riboflavin kinase; Region: Flavokinase; pfam01687 1215088002382 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1215088002383 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1215088002384 active site 1215088002385 HIGH motif; other site 1215088002386 nucleotide binding site [chemical binding]; other site 1215088002387 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1215088002388 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1215088002389 active site 1215088002390 KMSKS motif; other site 1215088002391 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1215088002392 tRNA binding surface [nucleotide binding]; other site 1215088002393 anticodon binding site; other site 1215088002394 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1215088002395 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1215088002396 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1215088002397 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1215088002398 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1215088002399 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1215088002400 Type II transport protein GspH; Region: GspH; pfam12019 1215088002401 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1215088002402 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1215088002403 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1215088002404 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1215088002405 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088002406 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1215088002407 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1215088002408 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 1215088002409 RNA binding surface [nucleotide binding]; other site 1215088002410 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1215088002411 active site 1215088002412 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1215088002413 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1215088002414 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1215088002415 Clp amino terminal domain; Region: Clp_N; pfam02861 1215088002416 Clp amino terminal domain; Region: Clp_N; pfam02861 1215088002417 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 1215088002418 Walker A motif; other site 1215088002419 ATP binding site [chemical binding]; other site 1215088002420 Walker B motif; other site 1215088002421 arginine finger; other site 1215088002422 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 1215088002423 Walker A motif; other site 1215088002424 ATP binding site [chemical binding]; other site 1215088002425 Walker B motif; other site 1215088002426 arginine finger; other site 1215088002427 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1215088002428 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1215088002429 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088002430 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 1215088002431 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 1215088002432 Predicted membrane protein [Function unknown]; Region: COG3235 1215088002433 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1215088002434 DNA gyrase inhibitor; Reviewed; Region: PRK00418 1215088002435 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1215088002436 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 1215088002437 CoA-binding site [chemical binding]; other site 1215088002438 ATP-binding [chemical binding]; other site 1215088002439 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 1215088002440 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1215088002441 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1215088002442 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1215088002443 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1215088002444 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1215088002445 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1215088002446 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1215088002447 Pilin (bacterial filament); Region: Pilin; pfam00114 1215088002448 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1215088002449 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1215088002450 cofactor binding site; other site 1215088002451 DNA binding site [nucleotide binding] 1215088002452 substrate interaction site [chemical binding]; other site 1215088002453 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1215088002454 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1215088002455 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088002456 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088002457 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088002458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088002459 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 1215088002460 putative effector binding pocket; other site 1215088002461 putative dimerization interface [polypeptide binding]; other site 1215088002462 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 1215088002463 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1215088002464 transmembrane helices; other site 1215088002465 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1215088002466 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1215088002467 Predicted nucleotidyltransferase [General function prediction only]; Region: COG4849 1215088002468 xylose isomerase, Arthrobacter type; Region: xylA_Arthro; TIGR02631 1215088002469 malate dehydrogenase; Reviewed; Region: PRK06223 1215088002470 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1215088002471 NAD(P) binding site [chemical binding]; other site 1215088002472 dimer interface [polypeptide binding]; other site 1215088002473 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1215088002474 substrate binding site [chemical binding]; other site 1215088002475 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088002476 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 1215088002477 dimer interface [polypeptide binding]; other site 1215088002478 conserved gate region; other site 1215088002479 putative PBP binding loops; other site 1215088002480 ABC-ATPase subunit interface; other site 1215088002481 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 1215088002482 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088002483 substrate binding pocket [chemical binding]; other site 1215088002484 membrane-bound complex binding site; other site 1215088002485 hinge residues; other site 1215088002486 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1215088002487 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 1215088002488 cystathionine gamma-synthase; Provisional; Region: PRK08249 1215088002489 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 1215088002490 homodimer interface [polypeptide binding]; other site 1215088002491 substrate-cofactor binding pocket; other site 1215088002492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088002493 catalytic residue [active] 1215088002494 S-methylmethionine transporter; Provisional; Region: PRK11387 1215088002495 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1215088002496 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1215088002497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088002498 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 1215088002499 dimerization interface [polypeptide binding]; other site 1215088002500 substrate binding pocket [chemical binding]; other site 1215088002501 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1215088002502 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 1215088002503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088002504 catalytic residue [active] 1215088002505 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1215088002506 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1215088002507 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088002508 homoserine dehydrogenase; Provisional; Region: PRK06270 1215088002509 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1215088002510 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 1215088002511 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1215088002512 NAD(P) binding site [chemical binding]; other site 1215088002513 catalytic residues [active] 1215088002514 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 1215088002515 homotrimer interaction site [polypeptide binding]; other site 1215088002516 putative active site [active] 1215088002517 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1215088002518 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1215088002519 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 1215088002520 dimer interface [polypeptide binding]; other site 1215088002521 active site 1215088002522 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1215088002523 folate binding site [chemical binding]; other site 1215088002524 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 1215088002525 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 1215088002526 putative active site [active] 1215088002527 heme pocket [chemical binding]; other site 1215088002528 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1215088002529 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 1215088002530 putative active site [active] 1215088002531 heme pocket [chemical binding]; other site 1215088002532 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088002533 metal binding site [ion binding]; metal-binding site 1215088002534 active site 1215088002535 I-site; other site 1215088002536 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 1215088002537 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1215088002538 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1215088002539 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1215088002540 ABC transporter; Region: ABC_tran_2; pfam12848 1215088002541 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1215088002542 glutamate dehydrogenase; Provisional; Region: PRK09414 1215088002543 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1215088002544 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1215088002545 NAD(P) binding site [chemical binding]; other site 1215088002546 transcription elongation factor regulatory protein; Validated; Region: PRK06342 1215088002547 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1215088002548 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1215088002549 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1215088002550 AAA domain; Region: AAA_32; pfam13654 1215088002551 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1215088002552 hypothetical protein; Provisional; Region: PRK05208 1215088002553 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1215088002554 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1215088002555 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1215088002556 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1215088002557 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1215088002558 PhnA protein; Region: PhnA; pfam03831 1215088002559 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1215088002560 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1215088002561 substrate binding pocket [chemical binding]; other site 1215088002562 chain length determination region; other site 1215088002563 substrate-Mg2+ binding site; other site 1215088002564 catalytic residues [active] 1215088002565 aspartate-rich region 1; other site 1215088002566 active site lid residues [active] 1215088002567 aspartate-rich region 2; other site 1215088002568 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1215088002569 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1215088002570 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1215088002571 GTP1/OBG; Region: GTP1_OBG; pfam01018 1215088002572 Obg GTPase; Region: Obg; cd01898 1215088002573 G1 box; other site 1215088002574 GTP/Mg2+ binding site [chemical binding]; other site 1215088002575 Switch I region; other site 1215088002576 G2 box; other site 1215088002577 G3 box; other site 1215088002578 Switch II region; other site 1215088002579 G4 box; other site 1215088002580 G5 box; other site 1215088002581 gamma-glutamyl kinase; Provisional; Region: PRK05429 1215088002582 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 1215088002583 nucleotide binding site [chemical binding]; other site 1215088002584 homotetrameric interface [polypeptide binding]; other site 1215088002585 putative phosphate binding site [ion binding]; other site 1215088002586 putative allosteric binding site; other site 1215088002587 PUA domain; Region: PUA; pfam01472 1215088002588 hypothetical protein; Provisional; Region: PRK10756 1215088002589 CreA protein; Region: CreA; pfam05981 1215088002590 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 1215088002591 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1215088002592 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1215088002593 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1215088002594 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1215088002595 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1215088002596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088002597 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 1215088002598 dimerization interface [polypeptide binding]; other site 1215088002599 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1215088002600 FecR protein; Region: FecR; pfam04773 1215088002601 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088002602 putative substrate translocation pore; other site 1215088002603 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088002604 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088002605 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088002606 putative substrate translocation pore; other site 1215088002607 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1215088002608 endonuclease III; Region: ENDO3c; smart00478 1215088002609 minor groove reading motif; other site 1215088002610 helix-hairpin-helix signature motif; other site 1215088002611 substrate binding pocket [chemical binding]; other site 1215088002612 active site 1215088002613 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1215088002614 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1215088002615 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088002616 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1215088002617 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 1215088002618 DNA binding site [nucleotide binding] 1215088002619 active site 1215088002620 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1215088002621 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1215088002622 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1215088002623 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 1215088002624 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1215088002625 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 1215088002626 NAD(P) binding site [chemical binding]; other site 1215088002627 catalytic residues [active] 1215088002628 catalytic residues [active] 1215088002629 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 1215088002630 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1215088002631 Na binding site [ion binding]; other site 1215088002632 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1215088002633 SnoaL-like domain; Region: SnoaL_3; pfam13474 1215088002634 Fic family protein [Function unknown]; Region: COG3177 1215088002635 Fic/DOC family; Region: Fic; pfam02661 1215088002636 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1215088002637 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 1215088002638 Cl binding site [ion binding]; other site 1215088002639 oligomer interface [polypeptide binding]; other site 1215088002640 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 1215088002641 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1215088002642 Walker A/P-loop; other site 1215088002643 ATP binding site [chemical binding]; other site 1215088002644 Q-loop/lid; other site 1215088002645 ABC transporter signature motif; other site 1215088002646 Walker B; other site 1215088002647 D-loop; other site 1215088002648 H-loop/switch region; other site 1215088002649 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 1215088002650 dimer interface [polypeptide binding]; other site 1215088002651 conserved gate region; other site 1215088002652 putative PBP binding loops; other site 1215088002653 ABC-ATPase subunit interface; other site 1215088002654 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 1215088002655 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088002656 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 1215088002657 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 1215088002658 substrate binding pocket [chemical binding]; other site 1215088002659 membrane-bound complex binding site; other site 1215088002660 hinge residues; other site 1215088002661 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 1215088002662 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088002663 DNA-binding site [nucleotide binding]; DNA binding site 1215088002664 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 1215088002665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088002666 homodimer interface [polypeptide binding]; other site 1215088002667 catalytic residue [active] 1215088002668 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1215088002669 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 1215088002670 tetramer interface [polypeptide binding]; other site 1215088002671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088002672 catalytic residue [active] 1215088002673 ectoine utilization protein EutC; Validated; Region: PRK08291 1215088002674 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1215088002675 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 1215088002676 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1215088002677 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 1215088002678 active site 1215088002679 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 1215088002680 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 1215088002681 putative active site [active] 1215088002682 Zn binding site [ion binding]; other site 1215088002683 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1215088002684 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1215088002685 tetramerization interface [polypeptide binding]; other site 1215088002686 NAD(P) binding site [chemical binding]; other site 1215088002687 catalytic residues [active] 1215088002688 hypothetical protein; Provisional; Region: PRK07482 1215088002689 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 1215088002690 inhibitor-cofactor binding pocket; inhibition site 1215088002691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088002692 catalytic residue [active] 1215088002693 Isochorismatase family; Region: Isochorismatase; pfam00857 1215088002694 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 1215088002695 catalytic triad [active] 1215088002696 dimer interface [polypeptide binding]; other site 1215088002697 conserved cis-peptide bond; other site 1215088002698 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1215088002699 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1215088002700 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1215088002701 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1215088002702 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1215088002703 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1215088002704 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088002705 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088002706 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1215088002707 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1215088002708 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1215088002709 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1215088002710 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 1215088002711 GTP-binding protein YchF; Reviewed; Region: PRK09601 1215088002712 YchF GTPase; Region: YchF; cd01900 1215088002713 G1 box; other site 1215088002714 GTP/Mg2+ binding site [chemical binding]; other site 1215088002715 Switch I region; other site 1215088002716 G2 box; other site 1215088002717 Switch II region; other site 1215088002718 G3 box; other site 1215088002719 G4 box; other site 1215088002720 G5 box; other site 1215088002721 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 1215088002722 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 1215088002723 putative active site [active] 1215088002724 catalytic residue [active] 1215088002725 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1215088002726 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1215088002727 5S rRNA interface [nucleotide binding]; other site 1215088002728 CTC domain interface [polypeptide binding]; other site 1215088002729 L16 interface [polypeptide binding]; other site 1215088002730 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1215088002731 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1215088002732 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1215088002733 active site 1215088002734 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1215088002735 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1215088002736 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1215088002737 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1215088002738 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 1215088002739 TPR motif; other site 1215088002740 binding surface 1215088002741 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1215088002742 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 1215088002743 binding surface 1215088002744 TPR motif; other site 1215088002745 TPR repeat; Region: TPR_11; pfam13414 1215088002746 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 1215088002747 binding surface 1215088002748 TPR motif; other site 1215088002749 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1215088002750 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1215088002751 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1215088002752 tRNA; other site 1215088002753 putative tRNA binding site [nucleotide binding]; other site 1215088002754 putative NADP binding site [chemical binding]; other site 1215088002755 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1215088002756 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1215088002757 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1215088002758 RF-1 domain; Region: RF-1; pfam00472 1215088002759 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1215088002760 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 1215088002761 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1215088002762 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 1215088002763 ATP binding site [chemical binding]; other site 1215088002764 substrate interface [chemical binding]; other site 1215088002765 glutamate racemase; Provisional; Region: PRK00865 1215088002766 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1215088002767 short chain dehydrogenase; Provisional; Region: PRK06101 1215088002768 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 1215088002769 DNA photolyase; Region: DNA_photolyase; pfam00875 1215088002770 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1215088002771 DNA binding residues [nucleotide binding] 1215088002772 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1215088002773 B12 binding domain; Region: B12-binding_2; cl03653 1215088002774 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1215088002775 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1215088002776 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 1215088002777 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1215088002778 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1215088002779 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1215088002780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088002781 NAD(P) binding site [chemical binding]; other site 1215088002782 active site 1215088002783 ferrochelatase; Reviewed; Region: hemH; PRK00035 1215088002784 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 1215088002785 C-terminal domain interface [polypeptide binding]; other site 1215088002786 active site 1215088002787 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 1215088002788 active site 1215088002789 N-terminal domain interface [polypeptide binding]; other site 1215088002790 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1215088002791 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1215088002792 active site 1215088002793 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1215088002794 active site 1215088002795 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 1215088002796 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1215088002797 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 1215088002798 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1215088002799 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1215088002800 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1215088002801 putative acyl-acceptor binding pocket; other site 1215088002802 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1215088002803 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1215088002804 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1215088002805 Peptidase family M48; Region: Peptidase_M48; pfam01435 1215088002806 Predicted membrane protein [Function unknown]; Region: COG2119 1215088002807 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1215088002808 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1215088002809 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1215088002810 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1215088002811 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 1215088002812 S-adenosylmethionine binding site [chemical binding]; other site 1215088002813 glycerate dehydrogenase; Provisional; Region: PRK06487 1215088002814 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1215088002815 putative ligand binding site [chemical binding]; other site 1215088002816 putative NAD binding site [chemical binding]; other site 1215088002817 catalytic site [active] 1215088002818 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1215088002819 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1215088002820 dimer interface [polypeptide binding]; other site 1215088002821 acyl-activating enzyme (AAE) consensus motif; other site 1215088002822 putative active site [active] 1215088002823 AMP binding site [chemical binding]; other site 1215088002824 putative CoA binding site [chemical binding]; other site 1215088002825 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1215088002826 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1215088002827 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1215088002828 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 1215088002829 DNA binding residues [nucleotide binding] 1215088002830 dimerization interface [polypeptide binding]; other site 1215088002831 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1215088002832 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088002833 active site 1215088002834 phosphorylation site [posttranslational modification] 1215088002835 intermolecular recognition site; other site 1215088002836 dimerization interface [polypeptide binding]; other site 1215088002837 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 1215088002838 binding surface 1215088002839 TPR motif; other site 1215088002840 TPR repeat; Region: TPR_11; pfam13414 1215088002841 TPR repeat; Region: TPR_11; pfam13414 1215088002842 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088002843 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 1215088002844 ATP binding site [chemical binding]; other site 1215088002845 Mg2+ binding site [ion binding]; other site 1215088002846 G-X-G motif; other site 1215088002847 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1215088002848 toxin ChpB; Provisional; Region: PRK09812 1215088002849 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1215088002850 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1215088002851 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088002852 ligand binding site [chemical binding]; other site 1215088002853 phosphate acetyltransferase; Reviewed; Region: PRK05632 1215088002854 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1215088002855 DRTGG domain; Region: DRTGG; pfam07085 1215088002856 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1215088002857 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 1215088002858 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1215088002859 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1215088002860 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 1215088002861 catalytic residues [active] 1215088002862 dimer interface [polypeptide binding]; other site 1215088002863 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1215088002864 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 1215088002865 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 1215088002866 PAS domain; Region: PAS_9; pfam13426 1215088002867 putative active site [active] 1215088002868 heme pocket [chemical binding]; other site 1215088002869 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 1215088002870 PAS domain; Region: PAS_9; pfam13426 1215088002871 putative active site [active] 1215088002872 heme pocket [chemical binding]; other site 1215088002873 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088002874 dimer interface [polypeptide binding]; other site 1215088002875 putative CheW interface [polypeptide binding]; other site 1215088002876 GAD-like domain; Region: GAD-like; pfam08887 1215088002877 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 1215088002878 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1215088002879 thioredoxin reductase; Provisional; Region: PRK10262 1215088002880 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1215088002881 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088002882 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 1215088002883 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 1215088002884 dimerization interface [polypeptide binding]; other site 1215088002885 active site 1215088002886 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1215088002887 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1215088002888 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 1215088002889 amidase catalytic site [active] 1215088002890 Zn binding residues [ion binding]; other site 1215088002891 substrate binding site [chemical binding]; other site 1215088002892 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1215088002893 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1215088002894 active site 1215088002895 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1215088002896 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1215088002897 DNA binding site [nucleotide binding] 1215088002898 domain linker motif; other site 1215088002899 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1215088002900 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1215088002901 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 1215088002902 active site 1215088002903 phosphorylation site [posttranslational modification] 1215088002904 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 1215088002905 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 1215088002906 dimerization domain swap beta strand [polypeptide binding]; other site 1215088002907 regulatory protein interface [polypeptide binding]; other site 1215088002908 active site 1215088002909 regulatory phosphorylation site [posttranslational modification]; other site 1215088002910 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1215088002911 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1215088002912 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1215088002913 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1215088002914 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1215088002915 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 1215088002916 putative substrate binding site [chemical binding]; other site 1215088002917 putative ATP binding site [chemical binding]; other site 1215088002918 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 1215088002919 active site 1215088002920 P-loop; other site 1215088002921 phosphorylation site [posttranslational modification] 1215088002922 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1215088002923 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 1215088002924 active site 1215088002925 P-loop; other site 1215088002926 phosphorylation site [posttranslational modification] 1215088002927 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1215088002928 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1215088002929 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1215088002930 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088002931 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088002932 metal binding site [ion binding]; metal-binding site 1215088002933 active site 1215088002934 I-site; other site 1215088002935 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088002936 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1215088002937 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 1215088002938 dimer interface [polypeptide binding]; other site 1215088002939 phosphorylation site [posttranslational modification] 1215088002940 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 1215088002941 ATP binding site [chemical binding]; other site 1215088002942 G-X-G motif; other site 1215088002943 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1215088002944 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088002945 active site 1215088002946 phosphorylation site [posttranslational modification] 1215088002947 intermolecular recognition site; other site 1215088002948 dimerization interface [polypeptide binding]; other site 1215088002949 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 1215088002950 DNA binding site [nucleotide binding] 1215088002951 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1215088002952 Protein export membrane protein; Region: SecD_SecF; cl14618 1215088002953 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1215088002954 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 1215088002955 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088002956 Flagellin N-methylase; Region: FliB; pfam03692 1215088002957 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1215088002958 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088002959 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088002960 active site 1215088002961 phosphorylation site [posttranslational modification] 1215088002962 intermolecular recognition site; other site 1215088002963 dimerization interface [polypeptide binding]; other site 1215088002964 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1215088002965 GAF domain; Region: GAF; pfam01590 1215088002966 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 1215088002967 Walker A motif; other site 1215088002968 ATP binding site [chemical binding]; other site 1215088002969 Walker B motif; other site 1215088002970 arginine finger; other site 1215088002971 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1215088002972 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1215088002973 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 1215088002974 heme-binding site [chemical binding]; other site 1215088002975 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 1215088002976 FAD binding pocket [chemical binding]; other site 1215088002977 FAD binding motif [chemical binding]; other site 1215088002978 phosphate binding motif [ion binding]; other site 1215088002979 beta-alpha-beta structure motif; other site 1215088002980 NAD binding pocket [chemical binding]; other site 1215088002981 Heme binding pocket [chemical binding]; other site 1215088002982 disulfide bond formation protein B; Provisional; Region: PRK02110 1215088002983 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1215088002984 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1215088002985 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1215088002986 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1215088002987 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 1215088002988 D-pathway; other site 1215088002989 Putative ubiquinol binding site [chemical binding]; other site 1215088002990 Low-spin heme (heme b) binding site [chemical binding]; other site 1215088002991 Putative water exit pathway; other site 1215088002992 Binuclear center (heme o3/CuB) [ion binding]; other site 1215088002993 K-pathway; other site 1215088002994 Putative proton exit pathway; other site 1215088002995 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 1215088002996 Subunit I/III interface [polypeptide binding]; other site 1215088002997 Subunit III/IV interface [polypeptide binding]; other site 1215088002998 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1215088002999 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1215088003000 UbiA prenyltransferase family; Region: UbiA; pfam01040 1215088003001 aminotransferase; Validated; Region: PRK08175 1215088003002 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 1215088003003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088003004 homodimer interface [polypeptide binding]; other site 1215088003005 catalytic residue [active] 1215088003006 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1215088003007 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088003008 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1215088003009 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1215088003010 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1215088003011 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1215088003012 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1215088003013 active site residue [active] 1215088003014 selenophosphate synthetase; Provisional; Region: PRK00943 1215088003015 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 1215088003016 dimerization interface [polypeptide binding]; other site 1215088003017 putative ATP binding site [chemical binding]; other site 1215088003018 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1215088003019 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 1215088003020 substrate binding pocket [chemical binding]; other site 1215088003021 membrane-bound complex binding site; other site 1215088003022 hinge residues; other site 1215088003023 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1215088003024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088003025 Walker A/P-loop; other site 1215088003026 ATP binding site [chemical binding]; other site 1215088003027 Q-loop/lid; other site 1215088003028 ABC transporter signature motif; other site 1215088003029 Walker B; other site 1215088003030 D-loop; other site 1215088003031 H-loop/switch region; other site 1215088003032 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 1215088003033 dimer interface [polypeptide binding]; other site 1215088003034 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1215088003035 conserved gate region; other site 1215088003036 putative PBP binding loops; other site 1215088003037 ABC-ATPase subunit interface; other site 1215088003038 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1215088003039 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1215088003040 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1215088003041 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1215088003042 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1215088003043 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 1215088003044 substrate binding pocket [chemical binding]; other site 1215088003045 membrane-bound complex binding site; other site 1215088003046 hinge residues; other site 1215088003047 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1215088003048 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088003049 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1215088003050 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088003051 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 1215088003052 dimerization interface [polypeptide binding]; other site 1215088003053 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1215088003054 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1215088003055 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1215088003056 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1215088003057 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1215088003058 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1215088003059 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1215088003060 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1215088003061 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1215088003062 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1215088003063 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1215088003064 Protein export membrane protein; Region: SecD_SecF; pfam02355 1215088003065 hypothetical protein; Provisional; Region: PRK11280 1215088003066 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1215088003067 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 1215088003068 active site 1215088003069 dimerization interface [polypeptide binding]; other site 1215088003070 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1215088003071 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1215088003072 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1215088003073 serine O-acetyltransferase; Region: cysE; TIGR01172 1215088003074 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 1215088003075 trimer interface [polypeptide binding]; other site 1215088003076 active site 1215088003077 substrate binding site [chemical binding]; other site 1215088003078 CoA binding site [chemical binding]; other site 1215088003079 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1215088003080 Rrf2 family protein; Region: rrf2_super; TIGR00738 1215088003081 cysteine desulfurase; Provisional; Region: PRK14012 1215088003082 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1215088003083 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1215088003084 catalytic residue [active] 1215088003085 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1215088003086 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1215088003087 trimerization site [polypeptide binding]; other site 1215088003088 active site 1215088003089 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 1215088003090 co-chaperone HscB; Provisional; Region: hscB; PRK00294 1215088003091 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 1215088003092 HSP70 interaction site [polypeptide binding]; other site 1215088003093 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1215088003094 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1215088003095 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1215088003096 nucleotide binding site [chemical binding]; other site 1215088003097 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1215088003098 SBD interface [polypeptide binding]; other site 1215088003099 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1215088003100 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 1215088003101 catalytic loop [active] 1215088003102 iron binding site [ion binding]; other site 1215088003103 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 1215088003104 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 1215088003105 active site 1215088003106 multimer interface [polypeptide binding]; other site 1215088003107 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1215088003108 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 1215088003109 FeS/SAM binding site; other site 1215088003110 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1215088003111 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 1215088003112 binding surface 1215088003113 TPR motif; other site 1215088003114 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1215088003115 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 1215088003116 non-specific DNA binding site [nucleotide binding]; other site 1215088003117 salt bridge; other site 1215088003118 sequence-specific DNA binding site [nucleotide binding]; other site 1215088003119 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1215088003120 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1215088003121 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1215088003122 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1215088003123 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1215088003124 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 1215088003125 dimer interface [polypeptide binding]; other site 1215088003126 motif 1; other site 1215088003127 active site 1215088003128 motif 2; other site 1215088003129 motif 3; other site 1215088003130 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 1215088003131 anticodon binding site; other site 1215088003132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1215088003133 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1215088003134 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1215088003135 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1215088003136 Trp docking motif [polypeptide binding]; other site 1215088003137 active site 1215088003138 GTP-binding protein Der; Reviewed; Region: PRK00093 1215088003139 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1215088003140 G1 box; other site 1215088003141 GTP/Mg2+ binding site [chemical binding]; other site 1215088003142 Switch I region; other site 1215088003143 G2 box; other site 1215088003144 Switch II region; other site 1215088003145 G3 box; other site 1215088003146 G4 box; other site 1215088003147 G5 box; other site 1215088003148 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1215088003149 G1 box; other site 1215088003150 GTP/Mg2+ binding site [chemical binding]; other site 1215088003151 Switch I region; other site 1215088003152 G2 box; other site 1215088003153 G3 box; other site 1215088003154 Switch II region; other site 1215088003155 G4 box; other site 1215088003156 G5 box; other site 1215088003157 methionine aminotransferase; Validated; Region: PRK09082 1215088003158 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 1215088003159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088003160 homodimer interface [polypeptide binding]; other site 1215088003161 catalytic residue [active] 1215088003162 C-N hydrolase family amidase; Provisional; Region: PRK10438 1215088003163 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1215088003164 putative active site [active] 1215088003165 catalytic triad [active] 1215088003166 dimer interface [polypeptide binding]; other site 1215088003167 multimer interface [polypeptide binding]; other site 1215088003168 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1215088003169 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1215088003170 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1215088003171 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1215088003172 Flavodoxin; Region: Flavodoxin_1; pfam00258 1215088003173 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 1215088003174 FAD binding pocket [chemical binding]; other site 1215088003175 FAD binding motif [chemical binding]; other site 1215088003176 catalytic residues [active] 1215088003177 NAD binding pocket [chemical binding]; other site 1215088003178 phosphate binding motif [ion binding]; other site 1215088003179 beta-alpha-beta structure motif; other site 1215088003180 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1215088003181 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 1215088003182 N-terminal plug; other site 1215088003183 ligand-binding site [chemical binding]; other site 1215088003184 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1215088003185 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1215088003186 Sel1-like repeats; Region: SEL1; smart00671 1215088003187 Sel1-like repeats; Region: SEL1; smart00671 1215088003188 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1215088003189 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1215088003190 dimer interface [polypeptide binding]; other site 1215088003191 active site 1215088003192 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1215088003193 catalytic residues [active] 1215088003194 substrate binding site [chemical binding]; other site 1215088003195 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088003196 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1215088003197 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 1215088003198 DNA binding residues [nucleotide binding] 1215088003199 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1215088003200 FecR protein; Region: FecR; pfam04773 1215088003201 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1215088003202 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 1215088003203 N-terminal plug; other site 1215088003204 ligand-binding site [chemical binding]; other site 1215088003205 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1215088003206 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1215088003207 Walker A/P-loop; other site 1215088003208 ATP binding site [chemical binding]; other site 1215088003209 Q-loop/lid; other site 1215088003210 ABC transporter signature motif; other site 1215088003211 Walker B; other site 1215088003212 D-loop; other site 1215088003213 H-loop/switch region; other site 1215088003214 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 1215088003215 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 1215088003216 dimer interface [polypeptide binding]; other site 1215088003217 conserved gate region; other site 1215088003218 ABC-ATPase subunit interface; other site 1215088003219 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1215088003220 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1215088003221 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 1215088003222 dimer interface [polypeptide binding]; other site 1215088003223 conserved gate region; other site 1215088003224 putative PBP binding loops; other site 1215088003225 ABC-ATPase subunit interface; other site 1215088003226 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1215088003227 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1215088003228 G1 box; other site 1215088003229 putative GEF interaction site [polypeptide binding]; other site 1215088003230 GTP/Mg2+ binding site [chemical binding]; other site 1215088003231 Switch I region; other site 1215088003232 G2 box; other site 1215088003233 G3 box; other site 1215088003234 Switch II region; other site 1215088003235 G4 box; other site 1215088003236 G5 box; other site 1215088003237 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 1215088003238 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1215088003239 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1215088003240 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1215088003241 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088003242 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088003243 SnoaL-like domain; Region: SnoaL_2; pfam12680 1215088003244 Helix-turn-helix domain; Region: HTH_18; pfam12833 1215088003245 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088003246 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1215088003247 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1215088003248 Walker A/P-loop; other site 1215088003249 ATP binding site [chemical binding]; other site 1215088003250 Q-loop/lid; other site 1215088003251 ABC transporter signature motif; other site 1215088003252 Walker B; other site 1215088003253 D-loop; other site 1215088003254 H-loop/switch region; other site 1215088003255 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1215088003256 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1215088003257 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1215088003258 Walker A/P-loop; other site 1215088003259 ATP binding site [chemical binding]; other site 1215088003260 Q-loop/lid; other site 1215088003261 ABC transporter signature motif; other site 1215088003262 Walker B; other site 1215088003263 D-loop; other site 1215088003264 H-loop/switch region; other site 1215088003265 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1215088003266 dipeptide transporter; Provisional; Region: PRK10913 1215088003267 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1215088003268 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 1215088003269 putative PBP binding loops; other site 1215088003270 dimer interface [polypeptide binding]; other site 1215088003271 ABC-ATPase subunit interface; other site 1215088003272 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1215088003273 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 1215088003274 dimer interface [polypeptide binding]; other site 1215088003275 conserved gate region; other site 1215088003276 putative PBP binding loops; other site 1215088003277 ABC-ATPase subunit interface; other site 1215088003278 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1215088003279 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1215088003280 peptide binding site [polypeptide binding]; other site 1215088003281 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088003282 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1215088003283 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1215088003284 peptide binding site [polypeptide binding]; other site 1215088003285 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1215088003286 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1215088003287 peptide binding site [polypeptide binding]; other site 1215088003288 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1215088003289 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1215088003290 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088003291 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 1215088003292 ATP binding site [chemical binding]; other site 1215088003293 G-X-G motif; other site 1215088003294 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1215088003295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088003296 active site 1215088003297 phosphorylation site [posttranslational modification] 1215088003298 intermolecular recognition site; other site 1215088003299 dimerization interface [polypeptide binding]; other site 1215088003300 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088003301 Predicted permeases [General function prediction only]; Region: COG0679 1215088003302 aromatic amino acid transporter; Provisional; Region: PRK10238 1215088003303 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1215088003304 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1215088003305 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1215088003306 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1215088003307 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1215088003308 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1215088003309 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1215088003310 GatB domain; Region: GatB_Yqey; smart00845 1215088003311 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1215088003312 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1215088003313 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1215088003314 rod shape-determining protein MreB; Provisional; Region: PRK13927 1215088003315 MreB and similar proteins; Region: MreB_like; cd10225 1215088003316 nucleotide binding site [chemical binding]; other site 1215088003317 Mg binding site [ion binding]; other site 1215088003318 putative protofilament interaction site [polypeptide binding]; other site 1215088003319 RodZ interaction site [polypeptide binding]; other site 1215088003320 rod shape-determining protein MreC; Provisional; Region: PRK13922 1215088003321 rod shape-determining protein MreC; Region: MreC; pfam04085 1215088003322 rod shape-determining protein MreD; Region: MreD; cl01087 1215088003323 Maf-like protein; Region: Maf; pfam02545 1215088003324 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 1215088003325 active site 1215088003326 dimer interface [polypeptide binding]; other site 1215088003327 ribonuclease G; Provisional; Region: PRK11712 1215088003328 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 1215088003329 homodimer interface [polypeptide binding]; other site 1215088003330 oligonucleotide binding site [chemical binding]; other site 1215088003331 TIGR02099 family protein; Region: TIGR02099 1215088003332 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1215088003333 nitrilase; Region: PLN02798 1215088003334 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1215088003335 putative active site [active] 1215088003336 catalytic triad [active] 1215088003337 dimer interface [polypeptide binding]; other site 1215088003338 protease TldD; Provisional; Region: tldD; PRK10735 1215088003339 hypothetical protein; Provisional; Region: PRK05255 1215088003340 peptidase PmbA; Provisional; Region: PRK11040 1215088003341 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1215088003342 Class II fumarases; Region: Fumarase_classII; cd01362 1215088003343 active site 1215088003344 tetramer interface [polypeptide binding]; other site 1215088003345 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1215088003346 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1215088003347 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1215088003348 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 1215088003349 dimerization domain swap beta strand [polypeptide binding]; other site 1215088003350 regulatory protein interface [polypeptide binding]; other site 1215088003351 active site 1215088003352 regulatory phosphorylation site [posttranslational modification]; other site 1215088003353 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1215088003354 AAA domain; Region: AAA_18; pfam13238 1215088003355 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 1215088003356 active site 1215088003357 phosphorylation site [posttranslational modification] 1215088003358 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 1215088003359 30S subunit binding site; other site 1215088003360 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1215088003361 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1215088003362 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1215088003363 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1215088003364 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1215088003365 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1215088003366 Walker A/P-loop; other site 1215088003367 ATP binding site [chemical binding]; other site 1215088003368 Q-loop/lid; other site 1215088003369 ABC transporter signature motif; other site 1215088003370 Walker B; other site 1215088003371 D-loop; other site 1215088003372 H-loop/switch region; other site 1215088003373 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1215088003374 OstA-like protein; Region: OstA; pfam03968 1215088003375 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1215088003376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1215088003377 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1215088003378 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 1215088003379 active site 1215088003380 motif I; other site 1215088003381 motif II; other site 1215088003382 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1215088003383 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 1215088003384 putative active site [active] 1215088003385 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 1215088003386 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1215088003387 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1215088003388 Walker A/P-loop; other site 1215088003389 ATP binding site [chemical binding]; other site 1215088003390 Q-loop/lid; other site 1215088003391 ABC transporter signature motif; other site 1215088003392 Walker B; other site 1215088003393 D-loop; other site 1215088003394 H-loop/switch region; other site 1215088003395 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1215088003396 Permease; Region: Permease; cl00510 1215088003397 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1215088003398 mce related protein; Region: MCE; pfam02470 1215088003399 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1215088003400 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 1215088003401 anti sigma factor interaction site; other site 1215088003402 regulatory phosphorylation site [posttranslational modification]; other site 1215088003403 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1215088003404 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1215088003405 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 1215088003406 hinge; other site 1215088003407 active site 1215088003408 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1215088003409 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1215088003410 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1215088003411 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 1215088003412 NAD binding site [chemical binding]; other site 1215088003413 dimerization interface [polypeptide binding]; other site 1215088003414 product binding site; other site 1215088003415 substrate binding site [chemical binding]; other site 1215088003416 zinc binding site [ion binding]; other site 1215088003417 catalytic residues [active] 1215088003418 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1215088003419 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 1215088003420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088003421 homodimer interface [polypeptide binding]; other site 1215088003422 catalytic residue [active] 1215088003423 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1215088003424 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088003425 DNA-binding site [nucleotide binding]; DNA binding site 1215088003426 FCD domain; Region: FCD; pfam07729 1215088003427 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1215088003428 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088003429 SnoaL-like domain; Region: SnoaL_2; pfam12680 1215088003430 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1215088003431 GIY-YIG motif/motif A; other site 1215088003432 putative active site [active] 1215088003433 putative metal binding site [ion binding]; other site 1215088003434 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1215088003435 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1215088003436 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 1215088003437 IHF - DNA interface [nucleotide binding]; other site 1215088003438 IHF dimer interface [polypeptide binding]; other site 1215088003439 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1215088003440 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 1215088003441 S-adenosylmethionine binding site [chemical binding]; other site 1215088003442 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1215088003443 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1215088003444 HIGH motif; other site 1215088003445 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1215088003446 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1215088003447 active site 1215088003448 KMSKS motif; other site 1215088003449 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1215088003450 tRNA binding surface [nucleotide binding]; other site 1215088003451 anticodon binding site; other site 1215088003452 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1215088003453 DNA polymerase III subunit chi; Validated; Region: PRK05728 1215088003454 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1215088003455 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 1215088003456 interface (dimer of trimers) [polypeptide binding]; other site 1215088003457 Substrate-binding/catalytic site; other site 1215088003458 Zn-binding sites [ion binding]; other site 1215088003459 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1215088003460 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1215088003461 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1215088003462 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1215088003463 RDD family; Region: RDD; pfam06271 1215088003464 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 1215088003465 DNA-binding site [nucleotide binding]; DNA binding site 1215088003466 RNA-binding motif; other site 1215088003467 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1215088003468 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1215088003469 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1215088003470 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1215088003471 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1215088003472 glycine dehydrogenase; Provisional; Region: PRK05367 1215088003473 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 1215088003474 tetramer interface [polypeptide binding]; other site 1215088003475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088003476 catalytic residue [active] 1215088003477 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 1215088003478 tetramer interface [polypeptide binding]; other site 1215088003479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088003480 catalytic residue [active] 1215088003481 glycine cleavage system protein H; Provisional; Region: PRK13380 1215088003482 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 1215088003483 lipoyl attachment site [posttranslational modification]; other site 1215088003484 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1215088003485 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 1215088003486 putative NADP binding site [chemical binding]; other site 1215088003487 putative substrate binding site [chemical binding]; other site 1215088003488 active site 1215088003489 SnoaL-like domain; Region: SnoaL_2; pfam12680 1215088003490 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088003491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088003492 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 1215088003493 dimerization interface [polypeptide binding]; other site 1215088003494 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 1215088003495 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1215088003496 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1215088003497 putative aromatic amino acid binding site; other site 1215088003498 PAS domain; Region: PAS; smart00091 1215088003499 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 1215088003500 Walker A motif; other site 1215088003501 ATP binding site [chemical binding]; other site 1215088003502 Walker B motif; other site 1215088003503 arginine finger; other site 1215088003504 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1215088003505 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 1215088003506 putative substrate binding site [chemical binding]; other site 1215088003507 nucleotide binding site [chemical binding]; other site 1215088003508 nucleotide binding site [chemical binding]; other site 1215088003509 homodimer interface [polypeptide binding]; other site 1215088003510 ornithine carbamoyltransferase; Validated; Region: PRK02102 1215088003511 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1215088003512 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1215088003513 arginine deiminase; Provisional; Region: PRK01388 1215088003514 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1215088003515 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1215088003516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1215088003517 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 1215088003518 heme binding pocket [chemical binding]; other site 1215088003519 heme ligand [chemical binding]; other site 1215088003520 Secretin and TonB N terminus short domain; Region: STN; smart00965 1215088003521 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1215088003522 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 1215088003523 N-terminal plug; other site 1215088003524 ligand-binding site [chemical binding]; other site 1215088003525 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1215088003526 FecR protein; Region: FecR; pfam04773 1215088003527 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1215088003528 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088003529 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 1215088003530 DNA binding residues [nucleotide binding] 1215088003531 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1215088003532 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1215088003533 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1215088003534 phosphogluconate dehydratase; Validated; Region: PRK09054 1215088003535 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1215088003536 glucokinase; Provisional; Region: glk; PRK00292 1215088003537 glucokinase, proteobacterial type; Region: glk; TIGR00749 1215088003538 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1215088003539 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088003540 active site 1215088003541 phosphorylation site [posttranslational modification] 1215088003542 intermolecular recognition site; other site 1215088003543 dimerization interface [polypeptide binding]; other site 1215088003544 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 1215088003545 DNA binding site [nucleotide binding] 1215088003546 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1215088003547 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 1215088003548 ATP binding site [chemical binding]; other site 1215088003549 Mg2+ binding site [ion binding]; other site 1215088003550 G-X-G motif; other site 1215088003551 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 1215088003552 putative active cleft [active] 1215088003553 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1215088003554 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1215088003555 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 1215088003556 dimer interface [polypeptide binding]; other site 1215088003557 conserved gate region; other site 1215088003558 putative PBP binding loops; other site 1215088003559 ABC-ATPase subunit interface; other site 1215088003560 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1215088003561 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 1215088003562 dimer interface [polypeptide binding]; other site 1215088003563 conserved gate region; other site 1215088003564 putative PBP binding loops; other site 1215088003565 ABC-ATPase subunit interface; other site 1215088003566 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1215088003567 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1215088003568 Walker A/P-loop; other site 1215088003569 ATP binding site [chemical binding]; other site 1215088003570 Q-loop/lid; other site 1215088003571 ABC transporter signature motif; other site 1215088003572 Walker B; other site 1215088003573 D-loop; other site 1215088003574 H-loop/switch region; other site 1215088003575 TOBE domain; Region: TOBE_2; pfam08402 1215088003576 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1215088003577 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1215088003578 active site 1215088003579 phosphate binding residues; other site 1215088003580 catalytic residues [active] 1215088003581 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1215088003582 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1215088003583 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 1215088003584 putative active site [active] 1215088003585 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1215088003586 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1215088003587 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1215088003588 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 1215088003589 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1215088003590 putative active site [active] 1215088003591 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1215088003592 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1215088003593 active site 1215088003594 intersubunit interface [polypeptide binding]; other site 1215088003595 catalytic residue [active] 1215088003596 2-isopropylmalate synthase; Validated; Region: PRK03739 1215088003597 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1215088003598 active site 1215088003599 catalytic residues [active] 1215088003600 metal binding site [ion binding]; metal-binding site 1215088003601 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1215088003602 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1215088003603 Glypican; Region: Glypican; pfam01153 1215088003604 Peptidase family M23; Region: Peptidase_M23; pfam01551 1215088003605 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1215088003606 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 1215088003607 generic binding surface II; other site 1215088003608 generic binding surface I; other site 1215088003609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088003610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088003611 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 1215088003612 dimerization interface [polypeptide binding]; other site 1215088003613 substrate binding pocket [chemical binding]; other site 1215088003614 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1215088003615 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 1215088003616 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 1215088003617 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 1215088003618 active site 1215088003619 GMP synthase; Reviewed; Region: guaA; PRK00074 1215088003620 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1215088003621 AMP/PPi binding site [chemical binding]; other site 1215088003622 candidate oxyanion hole; other site 1215088003623 catalytic triad [active] 1215088003624 potential glutamine specificity residues [chemical binding]; other site 1215088003625 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 1215088003626 ATP Binding subdomain [chemical binding]; other site 1215088003627 Ligand Binding sites [chemical binding]; other site 1215088003628 Dimerization subdomain; other site 1215088003629 Sulfatase; Region: Sulfatase; cl17466 1215088003630 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1215088003631 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 1215088003632 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1215088003633 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1215088003634 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1215088003635 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 1215088003636 nucleoside/Zn binding site; other site 1215088003637 dimer interface [polypeptide binding]; other site 1215088003638 catalytic motif [active] 1215088003639 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1215088003640 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 1215088003641 substrate binding pocket [chemical binding]; other site 1215088003642 membrane-bound complex binding site; other site 1215088003643 hinge residues; other site 1215088003644 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 1215088003645 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1215088003646 catalytic residue [active] 1215088003647 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1215088003648 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 1215088003649 dimerization interface [polypeptide binding]; other site 1215088003650 ATP binding site [chemical binding]; other site 1215088003651 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 1215088003652 dimerization interface [polypeptide binding]; other site 1215088003653 ATP binding site [chemical binding]; other site 1215088003654 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1215088003655 putative active site [active] 1215088003656 catalytic triad [active] 1215088003657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1215088003658 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1215088003659 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 1215088003660 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1215088003661 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1215088003662 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1215088003663 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1215088003664 active site 1215088003665 metal binding site [ion binding]; metal-binding site 1215088003666 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1215088003667 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1215088003668 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1215088003669 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1215088003670 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1215088003671 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1215088003672 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 1215088003673 Walker A motif; other site 1215088003674 ATP binding site [chemical binding]; other site 1215088003675 Walker B motif; other site 1215088003676 type II secretion system protein F; Region: GspF; TIGR02120 1215088003677 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1215088003678 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1215088003679 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1215088003680 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1215088003681 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1215088003682 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1215088003683 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1215088003684 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1215088003685 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1215088003686 type II secretion system protein J; Region: gspJ; TIGR01711 1215088003687 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1215088003688 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1215088003689 GspL periplasmic domain; Region: GspL_C; cl14909 1215088003690 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1215088003691 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1215088003692 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1215088003693 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1215088003694 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1215088003695 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1215088003696 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1215088003697 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1215088003698 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1215088003699 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1215088003700 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1215088003701 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1215088003702 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 1215088003703 nudix motif; other site 1215088003704 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 1215088003705 putative active site [active] 1215088003706 putative CoA binding site [chemical binding]; other site 1215088003707 nudix motif; other site 1215088003708 metal binding site [ion binding]; metal-binding site 1215088003709 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1215088003710 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 1215088003711 trimer interface [polypeptide binding]; other site 1215088003712 putative metal binding site [ion binding]; other site 1215088003713 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1215088003714 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1215088003715 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1215088003716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088003717 ATP-grasp domain; Region: ATP-grasp; pfam02222 1215088003718 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088003719 metabolite-proton symporter; Region: 2A0106; TIGR00883 1215088003720 putative substrate translocation pore; other site 1215088003721 Domain of unknown function DUF21; Region: DUF21; pfam01595 1215088003722 FOG: CBS domain [General function prediction only]; Region: COG0517 1215088003723 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 1215088003724 Transporter associated domain; Region: CorC_HlyC; smart01091 1215088003725 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 1215088003726 signal recognition particle protein; Provisional; Region: PRK10867 1215088003727 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1215088003728 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 1215088003729 P loop; other site 1215088003730 GTP binding site [chemical binding]; other site 1215088003731 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1215088003732 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1215088003733 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1215088003734 RimM N-terminal domain; Region: RimM; pfam01782 1215088003735 PRC-barrel domain; Region: PRC; pfam05239 1215088003736 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1215088003737 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1215088003738 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 1215088003739 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1215088003740 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 1215088003741 active site 1215088003742 Int/Topo IB signature motif; other site 1215088003743 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 1215088003744 dimerization domain [polypeptide binding]; other site 1215088003745 dimer interface [polypeptide binding]; other site 1215088003746 catalytic residues [active] 1215088003747 homoserine dehydrogenase; Provisional; Region: PRK06349 1215088003748 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1215088003749 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1215088003750 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 1215088003751 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1215088003752 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 1215088003753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088003754 catalytic residue [active] 1215088003755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1215088003756 phosphorylation site [posttranslational modification] 1215088003757 intermolecular recognition site; other site 1215088003758 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1215088003759 conserved hypothetical protein; Region: TIGR02285 1215088003760 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1215088003761 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1215088003762 YaeQ protein; Region: YaeQ; pfam07152 1215088003763 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1215088003764 DHH family; Region: DHH; pfam01368 1215088003765 DHHA1 domain; Region: DHHA1; pfam02272 1215088003766 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1215088003767 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 1215088003768 active site 1215088003769 FMN binding site [chemical binding]; other site 1215088003770 substrate binding site [chemical binding]; other site 1215088003771 homotetramer interface [polypeptide binding]; other site 1215088003772 catalytic residue [active] 1215088003773 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1215088003774 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1215088003775 tetrameric interface [polypeptide binding]; other site 1215088003776 NAD binding site [chemical binding]; other site 1215088003777 catalytic residues [active] 1215088003778 substrate binding site [chemical binding]; other site 1215088003779 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1215088003780 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 1215088003781 dimer interface [polypeptide binding]; other site 1215088003782 conserved gate region; other site 1215088003783 ABC-ATPase subunit interface; other site 1215088003784 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 1215088003785 dimer interface [polypeptide binding]; other site 1215088003786 ABC-ATPase subunit interface; other site 1215088003787 putative PBP binding loops; other site 1215088003788 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1215088003789 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088003790 Walker A/P-loop; other site 1215088003791 ATP binding site [chemical binding]; other site 1215088003792 Q-loop/lid; other site 1215088003793 ABC transporter signature motif; other site 1215088003794 Walker B; other site 1215088003795 D-loop; other site 1215088003796 H-loop/switch region; other site 1215088003797 TOBE domain; Region: TOBE_2; pfam08402 1215088003798 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1215088003799 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1215088003800 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1215088003801 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1215088003802 putative metal binding site [ion binding]; other site 1215088003803 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1215088003804 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1215088003805 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 1215088003806 dimerization interface [polypeptide binding]; other site 1215088003807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088003808 dimer interface [polypeptide binding]; other site 1215088003809 putative CheW interface [polypeptide binding]; other site 1215088003810 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1215088003811 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1215088003812 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1215088003813 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 1215088003814 S-adenosylmethionine binding site [chemical binding]; other site 1215088003815 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 1215088003816 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 1215088003817 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 1215088003818 putative binding surface; other site 1215088003819 active site 1215088003820 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1215088003821 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 1215088003822 ATP binding site [chemical binding]; other site 1215088003823 Mg2+ binding site [ion binding]; other site 1215088003824 G-X-G motif; other site 1215088003825 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 1215088003826 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088003827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088003828 active site 1215088003829 phosphorylation site [posttranslational modification] 1215088003830 intermolecular recognition site; other site 1215088003831 dimerization interface [polypeptide binding]; other site 1215088003832 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 1215088003833 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088003834 active site 1215088003835 phosphorylation site [posttranslational modification] 1215088003836 intermolecular recognition site; other site 1215088003837 CheB methylesterase; Region: CheB_methylest; pfam01339 1215088003838 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088003839 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088003840 active site 1215088003841 phosphorylation site [posttranslational modification] 1215088003842 intermolecular recognition site; other site 1215088003843 dimerization interface [polypeptide binding]; other site 1215088003844 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088003845 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088003846 metal binding site [ion binding]; metal-binding site 1215088003847 active site 1215088003848 I-site; other site 1215088003849 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1215088003850 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1215088003851 RF-1 domain; Region: RF-1; pfam00472 1215088003852 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1215088003853 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 1215088003854 dimer interface [polypeptide binding]; other site 1215088003855 putative anticodon binding site; other site 1215088003856 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 1215088003857 motif 1; other site 1215088003858 active site 1215088003859 motif 2; other site 1215088003860 motif 3; other site 1215088003861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 1215088003862 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 1215088003863 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1215088003864 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1215088003865 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1215088003866 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1215088003867 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088003868 ligand binding site [chemical binding]; other site 1215088003869 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1215088003870 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1215088003871 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1215088003872 adenylate kinase; Reviewed; Region: adk; PRK00279 1215088003873 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 1215088003874 AMP-binding site [chemical binding]; other site 1215088003875 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1215088003876 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1215088003877 Glycoprotease family; Region: Peptidase_M22; pfam00814 1215088003878 Protein of unknown function DUF72; Region: DUF72; cl00777 1215088003879 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 1215088003880 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1215088003881 tetramer interface [polypeptide binding]; other site 1215088003882 active site 1215088003883 Mg2+/Mn2+ binding site [ion binding]; other site 1215088003884 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1215088003885 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 1215088003886 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088003887 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088003888 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088003889 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1215088003890 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1215088003891 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088003892 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088003893 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1215088003894 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 1215088003895 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1215088003896 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1215088003897 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1215088003898 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1215088003899 putative acyl-acceptor binding pocket; other site 1215088003900 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 1215088003901 DNA-binding site [nucleotide binding]; DNA binding site 1215088003902 RNA-binding motif; other site 1215088003903 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1215088003904 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 1215088003905 S-adenosylmethionine binding site [chemical binding]; other site 1215088003906 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1215088003907 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1215088003908 metal binding site [ion binding]; metal-binding site 1215088003909 dimer interface [polypeptide binding]; other site 1215088003910 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1215088003911 PMP-22/EMP/MP20/Claudin family; Region: PMP22_Claudin; cl17758 1215088003912 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1215088003913 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 1215088003914 Ligand binding site; other site 1215088003915 DXD motif; other site 1215088003916 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1215088003917 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 1215088003918 putative ATP binding site [chemical binding]; other site 1215088003919 putative substrate interface [chemical binding]; other site 1215088003920 Fe-S metabolism associated domain; Region: SufE; cl00951 1215088003921 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1215088003922 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 1215088003923 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1215088003924 catalytic residue [active] 1215088003925 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 1215088003926 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 1215088003927 putative trimer interface [polypeptide binding]; other site 1215088003928 putative CoA binding site [chemical binding]; other site 1215088003929 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 1215088003930 ArsC family; Region: ArsC; pfam03960 1215088003931 putative catalytic residues [active] 1215088003932 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 1215088003933 non-specific DNA binding site [nucleotide binding]; other site 1215088003934 salt bridge; other site 1215088003935 sequence-specific DNA binding site [nucleotide binding]; other site 1215088003936 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1215088003937 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1215088003938 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 1215088003939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088003940 homodimer interface [polypeptide binding]; other site 1215088003941 catalytic residue [active] 1215088003942 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 1215088003943 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1215088003944 metal binding triad; other site 1215088003945 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1215088003946 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1215088003947 Zn2+ binding site [ion binding]; other site 1215088003948 Mg2+ binding site [ion binding]; other site 1215088003949 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 1215088003950 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 1215088003951 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 1215088003952 active site 1215088003953 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 1215088003954 rRNA interaction site [nucleotide binding]; other site 1215088003955 S8 interaction site; other site 1215088003956 putative laminin-1 binding site; other site 1215088003957 elongation factor Ts; Provisional; Region: tsf; PRK09377 1215088003958 UBA/TS-N domain; Region: UBA; pfam00627 1215088003959 Elongation factor TS; Region: EF_TS; pfam00889 1215088003960 Elongation factor TS; Region: EF_TS; pfam00889 1215088003961 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 1215088003962 putative nucleotide binding site [chemical binding]; other site 1215088003963 uridine monophosphate binding site [chemical binding]; other site 1215088003964 homohexameric interface [polypeptide binding]; other site 1215088003965 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1215088003966 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 1215088003967 hinge region; other site 1215088003968 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1215088003969 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 1215088003970 catalytic residue [active] 1215088003971 putative FPP diphosphate binding site; other site 1215088003972 putative FPP binding hydrophobic cleft; other site 1215088003973 dimer interface [polypeptide binding]; other site 1215088003974 putative IPP diphosphate binding site; other site 1215088003975 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1215088003976 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1215088003977 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1215088003978 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1215088003979 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1215088003980 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1215088003981 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1215088003982 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 1215088003983 active site 1215088003984 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1215088003985 protein binding site [polypeptide binding]; other site 1215088003986 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 1215088003987 protein binding site [polypeptide binding]; other site 1215088003988 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 1215088003989 putative substrate binding region [chemical binding]; other site 1215088003990 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1215088003991 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1215088003992 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1215088003993 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1215088003994 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1215088003995 Surface antigen; Region: Bac_surface_Ag; pfam01103 1215088003996 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1215088003997 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1215088003998 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1215088003999 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 1215088004000 trimer interface [polypeptide binding]; other site 1215088004001 active site 1215088004002 UDP-GlcNAc binding site [chemical binding]; other site 1215088004003 lipid binding site [chemical binding]; lipid-binding site 1215088004004 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 1215088004005 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1215088004006 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 1215088004007 active site 1215088004008 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1215088004009 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1215088004010 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1215088004011 RNA/DNA hybrid binding site [nucleotide binding]; other site 1215088004012 active site 1215088004013 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1215088004014 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1215088004015 putative active site [active] 1215088004016 putative PHP Thumb interface [polypeptide binding]; other site 1215088004017 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 1215088004018 generic binding surface II; other site 1215088004019 generic binding surface I; other site 1215088004020 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1215088004021 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1215088004022 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1215088004023 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 1215088004024 Ligand Binding Site [chemical binding]; other site 1215088004025 TilS substrate binding domain; Region: TilS; pfam09179 1215088004026 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1215088004027 CTP synthetase; Validated; Region: pyrG; PRK05380 1215088004028 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 1215088004029 Catalytic site [active] 1215088004030 active site 1215088004031 UTP binding site [chemical binding]; other site 1215088004032 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1215088004033 active site 1215088004034 putative oxyanion hole; other site 1215088004035 catalytic triad [active] 1215088004036 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1215088004037 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1215088004038 enolase; Provisional; Region: eno; PRK00077 1215088004039 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 1215088004040 dimer interface [polypeptide binding]; other site 1215088004041 metal binding site [ion binding]; metal-binding site 1215088004042 substrate binding pocket [chemical binding]; other site 1215088004043 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1215088004044 Septum formation initiator; Region: DivIC; cl17659 1215088004045 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1215088004046 substrate binding site; other site 1215088004047 dimer interface; other site 1215088004048 LysR family transcriptional regulator; Provisional; Region: PRK14997 1215088004049 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088004050 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 1215088004051 putative effector binding pocket; other site 1215088004052 putative dimerization interface [polypeptide binding]; other site 1215088004053 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1215088004054 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1215088004055 substrate binding site [chemical binding]; other site 1215088004056 catalytic Zn binding site [ion binding]; other site 1215088004057 NAD binding site [chemical binding]; other site 1215088004058 structural Zn binding site [ion binding]; other site 1215088004059 dimer interface [polypeptide binding]; other site 1215088004060 S-formylglutathione hydrolase; Region: PLN02442 1215088004061 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1215088004062 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 1215088004063 homotrimer interaction site [polypeptide binding]; other site 1215088004064 zinc binding site [ion binding]; other site 1215088004065 CDP-binding sites; other site 1215088004066 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1215088004067 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1215088004068 Permutation of conserved domain; other site 1215088004069 active site 1215088004070 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1215088004071 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1215088004072 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1215088004073 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 1215088004074 S-adenosylmethionine binding site [chemical binding]; other site 1215088004075 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1215088004076 Peptidase family M23; Region: Peptidase_M23; pfam01551 1215088004077 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1215088004078 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1215088004079 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088004080 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1215088004081 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 1215088004082 DNA binding residues [nucleotide binding] 1215088004083 Ferredoxin [Energy production and conversion]; Region: COG1146 1215088004084 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1215088004085 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1215088004086 MutS domain I; Region: MutS_I; pfam01624 1215088004087 MutS domain II; Region: MutS_II; pfam05188 1215088004088 MutS domain III; Region: MutS_III; pfam05192 1215088004089 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1215088004090 Walker A/P-loop; other site 1215088004091 ATP binding site [chemical binding]; other site 1215088004092 Q-loop/lid; other site 1215088004093 ABC transporter signature motif; other site 1215088004094 Walker B; other site 1215088004095 D-loop; other site 1215088004096 H-loop/switch region; other site 1215088004097 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1215088004098 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1215088004099 recombinase A; Provisional; Region: recA; PRK09354 1215088004100 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 1215088004101 hexamer interface [polypeptide binding]; other site 1215088004102 Walker A motif; other site 1215088004103 ATP binding site [chemical binding]; other site 1215088004104 Walker B motif; other site 1215088004105 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1215088004106 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1215088004107 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 1215088004108 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1215088004109 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088004110 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088004111 active site 1215088004112 phosphorylation site [posttranslational modification] 1215088004113 intermolecular recognition site; other site 1215088004114 dimerization interface [polypeptide binding]; other site 1215088004115 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 1215088004116 DNA binding residues [nucleotide binding] 1215088004117 dimerization interface [polypeptide binding]; other site 1215088004118 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1215088004119 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1215088004120 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088004121 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 1215088004122 putative dimerization interface [polypeptide binding]; other site 1215088004123 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1215088004124 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 1215088004125 FAD binding pocket [chemical binding]; other site 1215088004126 FAD binding motif [chemical binding]; other site 1215088004127 phosphate binding motif [ion binding]; other site 1215088004128 beta-alpha-beta structure motif; other site 1215088004129 NAD binding pocket [chemical binding]; other site 1215088004130 hypothetical protein; Provisional; Region: PRK04860 1215088004131 SprT homologues; Region: SprT; cl01182 1215088004132 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1215088004133 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1215088004134 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 1215088004135 Ligand Binding Site [chemical binding]; other site 1215088004136 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 1215088004137 Predicted membrane protein [Function unknown]; Region: COG3308 1215088004138 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1215088004139 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1215088004140 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 1215088004141 ArsC family; Region: ArsC; pfam03960 1215088004142 catalytic residues [active] 1215088004143 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 1215088004144 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1215088004145 catalytic residues [active] 1215088004146 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1215088004147 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1215088004148 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1215088004149 putative ligand binding site [chemical binding]; other site 1215088004150 putative NAD binding site [chemical binding]; other site 1215088004151 catalytic site [active] 1215088004152 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1215088004153 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 1215088004154 dimerization interface [polypeptide binding]; other site 1215088004155 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 1215088004156 dimer interface [polypeptide binding]; other site 1215088004157 phosphorylation site [posttranslational modification] 1215088004158 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 1215088004159 ATP binding site [chemical binding]; other site 1215088004160 Mg2+ binding site [ion binding]; other site 1215088004161 G-X-G motif; other site 1215088004162 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088004163 active site 1215088004164 phosphorylation site [posttranslational modification] 1215088004165 intermolecular recognition site; other site 1215088004166 dimerization interface [polypeptide binding]; other site 1215088004167 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 1215088004168 putative binding surface; other site 1215088004169 active site 1215088004170 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1215088004171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088004172 active site 1215088004173 phosphorylation site [posttranslational modification] 1215088004174 intermolecular recognition site; other site 1215088004175 dimerization interface [polypeptide binding]; other site 1215088004176 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 1215088004177 DNA binding site [nucleotide binding] 1215088004178 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088004179 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 1215088004180 dimerization interface [polypeptide binding]; other site 1215088004181 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 1215088004182 dimer interface [polypeptide binding]; other site 1215088004183 phosphorylation site [posttranslational modification] 1215088004184 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 1215088004185 ATP binding site [chemical binding]; other site 1215088004186 Mg2+ binding site [ion binding]; other site 1215088004187 G-X-G motif; other site 1215088004188 cysteine synthase B; Region: cysM; TIGR01138 1215088004189 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 1215088004190 dimer interface [polypeptide binding]; other site 1215088004191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088004192 catalytic residue [active] 1215088004193 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1215088004194 TRAM domain; Region: TRAM; pfam01938 1215088004195 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 1215088004196 S-adenosylmethionine binding site [chemical binding]; other site 1215088004197 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1215088004198 HD domain; Region: HD_4; pfam13328 1215088004199 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1215088004200 synthetase active site [active] 1215088004201 NTP binding site [chemical binding]; other site 1215088004202 metal binding site [ion binding]; metal-binding site 1215088004203 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 1215088004204 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1215088004205 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1215088004206 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 1215088004207 homodimer interface [polypeptide binding]; other site 1215088004208 metal binding site [ion binding]; metal-binding site 1215088004209 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 1215088004210 homodimer interface [polypeptide binding]; other site 1215088004211 active site 1215088004212 putative chemical substrate binding site [chemical binding]; other site 1215088004213 metal binding site [ion binding]; metal-binding site 1215088004214 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1215088004215 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1215088004216 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1215088004217 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1215088004218 active site 1215088004219 substrate binding site [chemical binding]; other site 1215088004220 cosubstrate binding site; other site 1215088004221 catalytic site [active] 1215088004222 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1215088004223 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 1215088004224 dimerization interface [polypeptide binding]; other site 1215088004225 putative ATP binding site [chemical binding]; other site 1215088004226 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1215088004227 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1215088004228 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1215088004229 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1215088004230 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 1215088004231 Walker A motif; other site 1215088004232 ATP binding site [chemical binding]; other site 1215088004233 Walker B motif; other site 1215088004234 arginine finger; other site 1215088004235 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1215088004236 NlpC/P60 family; Region: NLPC_P60; pfam00877 1215088004237 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1215088004238 NlpC/P60 family; Region: NLPC_P60; pfam00877 1215088004239 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1215088004240 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1215088004241 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1215088004242 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 1215088004243 Walker A motif; other site 1215088004244 homodimer interface [polypeptide binding]; other site 1215088004245 ATP binding site [chemical binding]; other site 1215088004246 hydroxycobalamin binding site [chemical binding]; other site 1215088004247 Walker B motif; other site 1215088004248 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1215088004249 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 1215088004250 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1215088004251 catalytic triad [active] 1215088004252 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 1215088004253 putative FMN binding site [chemical binding]; other site 1215088004254 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1215088004255 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1215088004256 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 1215088004257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088004258 homodimer interface [polypeptide binding]; other site 1215088004259 catalytic residue [active] 1215088004260 cobyric acid synthase; Provisional; Region: PRK00784 1215088004261 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1215088004262 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1215088004263 catalytic triad [active] 1215088004264 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 1215088004265 homotrimer interface [polypeptide binding]; other site 1215088004266 Walker A motif; other site 1215088004267 GTP binding site [chemical binding]; other site 1215088004268 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1215088004269 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1215088004270 putative dimer interface [polypeptide binding]; other site 1215088004271 active site pocket [active] 1215088004272 putative cataytic base [active] 1215088004273 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 1215088004274 catalytic core [active] 1215088004275 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1215088004276 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1215088004277 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1215088004278 MarR family; Region: MarR_2; pfam12802 1215088004279 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1215088004280 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088004281 putative substrate translocation pore; other site 1215088004282 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 1215088004283 catalytic residues [active] 1215088004284 dimer interface [polypeptide binding]; other site 1215088004285 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 1215088004286 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088004287 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088004288 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 1215088004289 putative effector binding pocket; other site 1215088004290 dimerization interface [polypeptide binding]; other site 1215088004291 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1215088004292 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1215088004293 RmuC family; Region: RmuC; pfam02646 1215088004294 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1215088004295 Na binding site [ion binding]; other site 1215088004296 PAS domain; Region: PAS; smart00091 1215088004297 PAS fold; Region: PAS_7; pfam12860 1215088004298 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088004299 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 1215088004300 dimer interface [polypeptide binding]; other site 1215088004301 phosphorylation site [posttranslational modification] 1215088004302 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 1215088004303 ATP binding site [chemical binding]; other site 1215088004304 Mg2+ binding site [ion binding]; other site 1215088004305 G-X-G motif; other site 1215088004306 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1215088004307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088004308 active site 1215088004309 phosphorylation site [posttranslational modification] 1215088004310 intermolecular recognition site; other site 1215088004311 dimerization interface [polypeptide binding]; other site 1215088004312 putative transporter; Provisional; Region: PRK10054 1215088004313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088004314 putative substrate translocation pore; other site 1215088004315 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1215088004316 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1215088004317 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1215088004318 putative acyl-acceptor binding pocket; other site 1215088004319 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1215088004320 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1215088004321 Sodium Bile acid symporter family; Region: SBF; cl17470 1215088004322 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1215088004323 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 1215088004324 active site 1215088004325 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 1215088004326 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1215088004327 [4Fe-4S] binding site [ion binding]; other site 1215088004328 molybdopterin cofactor binding site; other site 1215088004329 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 1215088004330 molybdopterin cofactor binding site; other site 1215088004331 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1215088004332 Flavodoxin; Region: Flavodoxin_1; pfam00258 1215088004333 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 1215088004334 FAD binding pocket [chemical binding]; other site 1215088004335 FAD binding motif [chemical binding]; other site 1215088004336 catalytic residues [active] 1215088004337 NAD binding pocket [chemical binding]; other site 1215088004338 phosphate binding motif [ion binding]; other site 1215088004339 beta-alpha-beta structure motif; other site 1215088004340 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1215088004341 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088004342 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1215088004343 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1215088004344 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 1215088004345 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1215088004346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088004347 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 1215088004348 dimerization interface [polypeptide binding]; other site 1215088004349 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1215088004350 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1215088004351 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1215088004352 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1215088004353 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1215088004354 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 1215088004355 salt bridge; other site 1215088004356 non-specific DNA binding site [nucleotide binding]; other site 1215088004357 sequence-specific DNA binding site [nucleotide binding]; other site 1215088004358 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 1215088004359 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 1215088004360 carboxy-terminal protease; Provisional; Region: PRK11186 1215088004361 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1215088004362 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 1215088004363 protein binding site [polypeptide binding]; other site 1215088004364 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1215088004365 Catalytic dyad [active] 1215088004366 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1215088004367 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1215088004368 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1215088004369 NAD(P) binding site [chemical binding]; other site 1215088004370 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1215088004371 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1215088004372 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1215088004373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088004374 Walker A/P-loop; other site 1215088004375 ATP binding site [chemical binding]; other site 1215088004376 Q-loop/lid; other site 1215088004377 ABC transporter signature motif; other site 1215088004378 Walker B; other site 1215088004379 D-loop; other site 1215088004380 H-loop/switch region; other site 1215088004381 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1215088004382 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 1215088004383 dimer interface [polypeptide binding]; other site 1215088004384 conserved gate region; other site 1215088004385 ABC-ATPase subunit interface; other site 1215088004386 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 1215088004387 dimer interface [polypeptide binding]; other site 1215088004388 conserved gate region; other site 1215088004389 putative PBP binding loops; other site 1215088004390 ABC-ATPase subunit interface; other site 1215088004391 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1215088004392 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1215088004393 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1215088004394 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088004395 transcriptional regulator protein; Region: phnR; TIGR03337 1215088004396 DNA-binding site [nucleotide binding]; DNA binding site 1215088004397 UTRA domain; Region: UTRA; pfam07702 1215088004398 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1215088004399 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1215088004400 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1215088004401 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1215088004402 active site 1215088004403 metal binding site [ion binding]; metal-binding site 1215088004404 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1215088004405 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1215088004406 active site 1215088004407 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1215088004408 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1215088004409 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 1215088004410 Switch I; other site 1215088004411 Switch II; other site 1215088004412 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1215088004413 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1215088004414 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1215088004415 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1215088004416 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1215088004417 putative acyl-acceptor binding pocket; other site 1215088004418 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1215088004419 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1215088004420 active site 1215088004421 nucleophile elbow; other site 1215088004422 VacJ like lipoprotein; Region: VacJ; cl01073 1215088004423 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1215088004424 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1215088004425 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1215088004426 Predicted membrane protein [Function unknown]; Region: COG3162 1215088004427 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1215088004428 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1215088004429 Na binding site [ion binding]; other site 1215088004430 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 1215088004431 short chain dehydrogenase; Provisional; Region: PRK05650 1215088004432 classical (c) SDRs; Region: SDR_c; cd05233 1215088004433 NAD(P) binding site [chemical binding]; other site 1215088004434 active site 1215088004435 Global regulator protein family; Region: CsrA; pfam02599 1215088004436 hypothetical protein; Provisional; Region: PRK00304 1215088004437 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1215088004438 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1215088004439 putative oligomer interface [polypeptide binding]; other site 1215088004440 putative active site [active] 1215088004441 metal binding site [ion binding]; metal-binding site 1215088004442 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 1215088004443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088004444 Coenzyme A binding pocket [chemical binding]; other site 1215088004445 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1215088004446 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 1215088004447 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 1215088004448 active site 1215088004449 dimer interface [polypeptide binding]; other site 1215088004450 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 1215088004451 Ligand Binding Site [chemical binding]; other site 1215088004452 Molecular Tunnel; other site 1215088004453 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1215088004454 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1215088004455 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1215088004456 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1215088004457 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1215088004458 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1215088004459 EamA-like transporter family; Region: EamA; pfam00892 1215088004460 fumarate hydratase; Provisional; Region: PRK12425 1215088004461 Class II fumarases; Region: Fumarase_classII; cd01362 1215088004462 active site 1215088004463 tetramer interface [polypeptide binding]; other site 1215088004464 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1215088004465 BolA-like protein; Region: BolA; pfam01722 1215088004466 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1215088004467 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1215088004468 active site residue [active] 1215088004469 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1215088004470 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 1215088004471 catalytic residues [active] 1215088004472 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1215088004473 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088004474 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1215088004475 Walker A/P-loop; other site 1215088004476 ATP binding site [chemical binding]; other site 1215088004477 Q-loop/lid; other site 1215088004478 ABC transporter signature motif; other site 1215088004479 Walker B; other site 1215088004480 D-loop; other site 1215088004481 H-loop/switch region; other site 1215088004482 PAS domain S-box; Region: sensory_box; TIGR00229 1215088004483 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 1215088004484 putative active site [active] 1215088004485 heme pocket [chemical binding]; other site 1215088004486 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088004487 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088004488 metal binding site [ion binding]; metal-binding site 1215088004489 active site 1215088004490 I-site; other site 1215088004491 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 1215088004492 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 1215088004493 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1215088004494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088004495 NAD(P) binding site [chemical binding]; other site 1215088004496 active site 1215088004497 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1215088004498 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1215088004499 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 1215088004500 motif II; other site 1215088004501 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1215088004502 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 1215088004503 S-adenosylmethionine binding site [chemical binding]; other site 1215088004504 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1215088004505 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1215088004506 DNA gyrase subunit A; Validated; Region: PRK05560 1215088004507 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 1215088004508 CAP-like domain; other site 1215088004509 active site 1215088004510 primary dimer interface [polypeptide binding]; other site 1215088004511 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1215088004512 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1215088004513 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1215088004514 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1215088004515 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1215088004516 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1215088004517 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 1215088004518 homodimer interface [polypeptide binding]; other site 1215088004519 substrate-cofactor binding pocket; other site 1215088004520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088004521 catalytic residue [active] 1215088004522 Chorismate mutase type II; Region: CM_2; cl00693 1215088004523 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1215088004524 Prephenate dehydratase; Region: PDT; pfam00800 1215088004525 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 1215088004526 putative L-Phe binding site [chemical binding]; other site 1215088004527 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 1215088004528 prephenate dehydrogenase; Validated; Region: PRK08507 1215088004529 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 1215088004530 hinge; other site 1215088004531 active site 1215088004532 cytidylate kinase; Provisional; Region: cmk; PRK00023 1215088004533 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 1215088004534 CMP-binding site; other site 1215088004535 The sites determining sugar specificity; other site 1215088004536 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1215088004537 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 1215088004538 RNA binding site [nucleotide binding]; other site 1215088004539 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 1215088004540 RNA binding site [nucleotide binding]; other site 1215088004541 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 1215088004542 RNA binding site [nucleotide binding]; other site 1215088004543 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 1215088004544 RNA binding site [nucleotide binding]; other site 1215088004545 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 1215088004546 RNA binding site [nucleotide binding]; other site 1215088004547 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 1215088004548 RNA binding site [nucleotide binding]; other site 1215088004549 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1215088004550 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 1215088004551 IHF dimer interface [polypeptide binding]; other site 1215088004552 IHF - DNA interface [nucleotide binding]; other site 1215088004553 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1215088004554 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1215088004555 Beta-Casp domain; Region: Beta-Casp; smart01027 1215088004556 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1215088004557 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1215088004558 Chain length determinant protein; Region: Wzz; pfam02706 1215088004559 Chain length determinant protein; Region: Wzz; cl15801 1215088004560 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1215088004561 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1215088004562 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1215088004563 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1215088004564 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1215088004565 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1215088004566 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1215088004567 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1215088004568 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1215088004569 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1215088004570 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1215088004571 putative trimer interface [polypeptide binding]; other site 1215088004572 putative active site [active] 1215088004573 putative substrate binding site [chemical binding]; other site 1215088004574 putative CoA binding site [chemical binding]; other site 1215088004575 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1215088004576 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 1215088004577 inhibitor-cofactor binding pocket; inhibition site 1215088004578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088004579 catalytic residue [active] 1215088004580 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1215088004581 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1215088004582 CoA binding site [chemical binding]; other site 1215088004583 active site 1215088004584 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1215088004585 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 1215088004586 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1215088004587 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_III; cd01996 1215088004588 Ligand Binding Site [chemical binding]; other site 1215088004589 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 1215088004590 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1215088004591 putative active site [active] 1215088004592 oxyanion strand; other site 1215088004593 catalytic triad [active] 1215088004594 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 1215088004595 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 1215088004596 substrate binding site [chemical binding]; other site 1215088004597 glutamase interaction surface [polypeptide binding]; other site 1215088004598 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 1215088004599 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1215088004600 NAD(P) binding site [chemical binding]; other site 1215088004601 homodimer interface [polypeptide binding]; other site 1215088004602 substrate binding site [chemical binding]; other site 1215088004603 active site 1215088004604 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1215088004605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088004606 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1215088004607 NAD(P) binding site [chemical binding]; other site 1215088004608 active site 1215088004609 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1215088004610 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1215088004611 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 1215088004612 active site 1215088004613 homodimer interface [polypeptide binding]; other site 1215088004614 putative glycosyl transferase; Provisional; Region: PRK10307 1215088004615 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1215088004616 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1215088004617 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 1215088004618 putative NAD(P) binding site [chemical binding]; other site 1215088004619 active site 1215088004620 putative substrate binding site [chemical binding]; other site 1215088004621 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1215088004622 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 1215088004623 Mg++ binding site [ion binding]; other site 1215088004624 putative catalytic motif [active] 1215088004625 putative substrate binding site [chemical binding]; other site 1215088004626 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1215088004627 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1215088004628 NAD(P) binding site [chemical binding]; other site 1215088004629 homodimer interface [polypeptide binding]; other site 1215088004630 substrate binding site [chemical binding]; other site 1215088004631 active site 1215088004632 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1215088004633 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1215088004634 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1215088004635 NAD binding site [chemical binding]; other site 1215088004636 substrate binding site [chemical binding]; other site 1215088004637 homodimer interface [polypeptide binding]; other site 1215088004638 active site 1215088004639 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 1215088004640 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1215088004641 NADP binding site [chemical binding]; other site 1215088004642 active site 1215088004643 putative substrate binding site [chemical binding]; other site 1215088004644 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1215088004645 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1215088004646 substrate binding site; other site 1215088004647 tetramer interface; other site 1215088004648 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1215088004649 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 1215088004650 active site 1215088004651 homodimer interface [polypeptide binding]; other site 1215088004652 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1215088004653 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1215088004654 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 1215088004655 active site 1215088004656 dimer interface [polypeptide binding]; other site 1215088004657 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1215088004658 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088004659 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1215088004660 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1215088004661 NAD(P) binding site [chemical binding]; other site 1215088004662 substrate binding site [chemical binding]; other site 1215088004663 dimer interface [polypeptide binding]; other site 1215088004664 short chain dehydrogenase; Provisional; Region: PRK06172 1215088004665 classical (c) SDRs; Region: SDR_c; cd05233 1215088004666 NAD(P) binding site [chemical binding]; other site 1215088004667 active site 1215088004668 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 1215088004669 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088004670 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088004671 dimer interface [polypeptide binding]; other site 1215088004672 putative CheW interface [polypeptide binding]; other site 1215088004673 benzoate transporter; Region: benE; TIGR00843 1215088004674 Benzoate membrane transport protein; Region: BenE; pfam03594 1215088004675 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1215088004676 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 1215088004677 putative C-terminal domain interface [polypeptide binding]; other site 1215088004678 putative GSH binding site (G-site) [chemical binding]; other site 1215088004679 putative dimer interface [polypeptide binding]; other site 1215088004680 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1215088004681 N-terminal domain interface [polypeptide binding]; other site 1215088004682 dimer interface [polypeptide binding]; other site 1215088004683 substrate binding pocket (H-site) [chemical binding]; other site 1215088004684 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1215088004685 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 1215088004686 GTP cyclohydrolase I; Provisional; Region: PLN03044 1215088004687 active site 1215088004688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1215088004689 Smr domain; Region: Smr; pfam01713 1215088004690 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 1215088004691 Isochorismatase family; Region: Isochorismatase; pfam00857 1215088004692 catalytic triad [active] 1215088004693 conserved cis-peptide bond; other site 1215088004694 HemK family putative methylases; Region: hemK_fam; TIGR00536 1215088004695 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 1215088004696 S-adenosylmethionine binding site [chemical binding]; other site 1215088004697 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1215088004698 MFS_1 like family; Region: MFS_1_like; pfam12832 1215088004699 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1215088004700 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1215088004701 Cupin domain; Region: Cupin_2; cl17218 1215088004702 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1215088004703 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1215088004704 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 1215088004705 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1215088004706 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1215088004707 ZIP Zinc transporter; Region: Zip; pfam02535 1215088004708 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1215088004709 Sulfatase; Region: Sulfatase; pfam00884 1215088004710 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1215088004711 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1215088004712 Cytochrome c; Region: Cytochrom_C; pfam00034 1215088004713 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1215088004714 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1215088004715 catalytic triad [active] 1215088004716 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1215088004717 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1215088004718 oligomer interface [polypeptide binding]; other site 1215088004719 metal binding site [ion binding]; metal-binding site 1215088004720 metal binding site [ion binding]; metal-binding site 1215088004721 putative Cl binding site [ion binding]; other site 1215088004722 basic sphincter; other site 1215088004723 hydrophobic gate; other site 1215088004724 periplasmic entrance; other site 1215088004725 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1215088004726 putative acyl-acceptor binding pocket; other site 1215088004727 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1215088004728 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 1215088004729 substrate binding site [chemical binding]; other site 1215088004730 oxyanion hole (OAH) forming residues; other site 1215088004731 trimer interface [polypeptide binding]; other site 1215088004732 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1215088004733 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 1215088004734 N-terminal plug; other site 1215088004735 ligand-binding site [chemical binding]; other site 1215088004736 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1215088004737 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088004738 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1215088004739 classical (c) SDRs; Region: SDR_c; cd05233 1215088004740 NAD(P) binding site [chemical binding]; other site 1215088004741 active site 1215088004742 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088004743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088004744 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 1215088004745 putative effector binding pocket; other site 1215088004746 dimerization interface [polypeptide binding]; other site 1215088004747 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1215088004748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1215088004749 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1215088004750 elongation factor P; Validated; Region: PRK00529 1215088004751 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1215088004752 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 1215088004753 RNA binding site [nucleotide binding]; other site 1215088004754 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 1215088004755 RNA binding site [nucleotide binding]; other site 1215088004756 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1215088004757 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1215088004758 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 1215088004759 dimerization interface [polypeptide binding]; other site 1215088004760 putative Zn2+ binding site [ion binding]; other site 1215088004761 putative DNA binding site [nucleotide binding]; other site 1215088004762 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088004763 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088004764 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 1215088004765 putative effector binding pocket; other site 1215088004766 dimerization interface [polypeptide binding]; other site 1215088004767 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1215088004768 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088004769 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088004770 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 1215088004771 dimerization interface [polypeptide binding]; other site 1215088004772 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1215088004773 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1215088004774 spermidine synthase; Provisional; Region: PRK00811 1215088004775 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 1215088004776 helicase 45; Provisional; Region: PTZ00424 1215088004777 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 1215088004778 ATP binding site [chemical binding]; other site 1215088004779 Mg++ binding site [ion binding]; other site 1215088004780 motif III; other site 1215088004781 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 1215088004782 nucleotide binding region [chemical binding]; other site 1215088004783 ATP-binding site [chemical binding]; other site 1215088004784 DbpA RNA binding domain; Region: DbpA; pfam03880 1215088004785 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 1215088004786 putative active site [active] 1215088004787 metal binding site [ion binding]; metal-binding site 1215088004788 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1215088004789 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 1215088004790 heat shock protein HtpX; Provisional; Region: PRK05457 1215088004791 aminotransferase AlaT; Validated; Region: PRK09265 1215088004792 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 1215088004793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088004794 homodimer interface [polypeptide binding]; other site 1215088004795 catalytic residue [active] 1215088004796 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1215088004797 SelR domain; Region: SelR; pfam01641 1215088004798 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 1215088004799 catalytic residues [active] 1215088004800 dimer interface [polypeptide binding]; other site 1215088004801 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 1215088004802 dimer interface [polypeptide binding]; other site 1215088004803 phosphorylation site [posttranslational modification] 1215088004804 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 1215088004805 ATP binding site [chemical binding]; other site 1215088004806 Mg2+ binding site [ion binding]; other site 1215088004807 G-X-G motif; other site 1215088004808 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088004809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088004810 active site 1215088004811 phosphorylation site [posttranslational modification] 1215088004812 intermolecular recognition site; other site 1215088004813 dimerization interface [polypeptide binding]; other site 1215088004814 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1215088004815 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 1215088004816 Walker A motif; other site 1215088004817 ATP binding site [chemical binding]; other site 1215088004818 Walker B motif; other site 1215088004819 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1215088004820 GAF domain; Region: GAF_2; pfam13185 1215088004821 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1215088004822 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1215088004823 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1215088004824 PapC C-terminal domain; Region: PapC_C; pfam13953 1215088004825 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1215088004826 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1215088004827 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1215088004828 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1215088004829 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1215088004830 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1215088004831 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1215088004832 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1215088004833 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1215088004834 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1215088004835 active site 1215088004836 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1215088004837 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1215088004838 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 1215088004839 putative C-terminal domain interface [polypeptide binding]; other site 1215088004840 putative GSH binding site (G-site) [chemical binding]; other site 1215088004841 putative dimer interface [polypeptide binding]; other site 1215088004842 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1215088004843 putative N-terminal domain interface [polypeptide binding]; other site 1215088004844 putative dimer interface [polypeptide binding]; other site 1215088004845 putative substrate binding pocket (H-site) [chemical binding]; other site 1215088004846 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1215088004847 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088004848 Walker A/P-loop; other site 1215088004849 ATP binding site [chemical binding]; other site 1215088004850 Q-loop/lid; other site 1215088004851 ABC transporter signature motif; other site 1215088004852 Walker B; other site 1215088004853 D-loop; other site 1215088004854 H-loop/switch region; other site 1215088004855 inner membrane transport permease; Provisional; Region: PRK15066 1215088004856 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1215088004857 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 1215088004858 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1215088004859 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1215088004860 Competence protein; Region: Competence; pfam03772 1215088004861 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1215088004862 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1215088004863 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1215088004864 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1215088004865 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 1215088004866 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1215088004867 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1215088004868 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1215088004869 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1215088004870 Ligand binding site; other site 1215088004871 oligomer interface; other site 1215088004872 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1215088004873 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1215088004874 active site 1215088004875 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1215088004876 FAD binding domain; Region: FAD_binding_4; pfam01565 1215088004877 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1215088004878 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1215088004879 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 1215088004880 homodimer interface [polypeptide binding]; other site 1215088004881 oligonucleotide binding site [chemical binding]; other site 1215088004882 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1215088004883 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 1215088004884 RNA binding surface [nucleotide binding]; other site 1215088004885 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1215088004886 active site 1215088004887 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1215088004888 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 1215088004889 motif II; other site 1215088004890 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1215088004891 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1215088004892 tandem repeat interface [polypeptide binding]; other site 1215088004893 oligomer interface [polypeptide binding]; other site 1215088004894 active site residues [active] 1215088004895 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 1215088004896 active site 1215088004897 dimer interface [polypeptide binding]; other site 1215088004898 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1215088004899 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1215088004900 putative phosphate acyltransferase; Provisional; Region: PRK05331 1215088004901 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1215088004902 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1215088004903 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1215088004904 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1215088004905 NAD(P) binding site [chemical binding]; other site 1215088004906 homotetramer interface [polypeptide binding]; other site 1215088004907 homodimer interface [polypeptide binding]; other site 1215088004908 active site 1215088004909 acyl carrier protein; Provisional; Region: acpP; PRK00982 1215088004910 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1215088004911 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 1215088004912 dimer interface [polypeptide binding]; other site 1215088004913 active site 1215088004914 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1215088004915 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 1215088004916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088004917 catalytic residue [active] 1215088004918 YceG-like family; Region: YceG; pfam02618 1215088004919 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1215088004920 dimerization interface [polypeptide binding]; other site 1215088004921 thymidylate kinase; Validated; Region: tmk; PRK00698 1215088004922 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 1215088004923 TMP-binding site; other site 1215088004924 ATP-binding site [chemical binding]; other site 1215088004925 DNA polymerase III subunit delta'; Validated; Region: PRK05707 1215088004926 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1215088004927 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1215088004928 active site 1215088004929 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088004930 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088004931 WHG domain; Region: WHG; pfam13305 1215088004932 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1215088004933 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 1215088004934 FeS/SAM binding site; other site 1215088004935 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1215088004936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1215088004937 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1215088004938 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1215088004939 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 1215088004940 nucleoside/Zn binding site; other site 1215088004941 dimer interface [polypeptide binding]; other site 1215088004942 catalytic motif [active] 1215088004943 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1215088004944 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 1215088004945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088004946 homodimer interface [polypeptide binding]; other site 1215088004947 catalytic residue [active] 1215088004948 excinuclease ABC subunit B; Provisional; Region: PRK05298 1215088004949 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 1215088004950 ATP binding site [chemical binding]; other site 1215088004951 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 1215088004952 nucleotide binding region [chemical binding]; other site 1215088004953 ATP-binding site [chemical binding]; other site 1215088004954 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1215088004955 UvrB/uvrC motif; Region: UVR; pfam02151 1215088004956 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1215088004957 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088004958 putative substrate translocation pore; other site 1215088004959 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088004960 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1215088004961 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088004962 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 1215088004963 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088004964 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1215088004965 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1215088004966 active site 1215088004967 HIGH motif; other site 1215088004968 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1215088004969 active site 1215088004970 KMSKS motif; other site 1215088004971 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088004972 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088004973 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1215088004974 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 1215088004975 active site 1215088004976 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1215088004977 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 1215088004978 FMN binding site [chemical binding]; other site 1215088004979 active site 1215088004980 catalytic residues [active] 1215088004981 substrate binding site [chemical binding]; other site 1215088004982 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1215088004983 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 1215088004984 putative dimer interface [polypeptide binding]; other site 1215088004985 PAS fold; Region: PAS_3; pfam08447 1215088004986 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 1215088004987 putative active site [active] 1215088004988 heme pocket [chemical binding]; other site 1215088004989 PAS domain S-box; Region: sensory_box; TIGR00229 1215088004990 PAS domain; Region: PAS; smart00091 1215088004991 putative active site [active] 1215088004992 heme pocket [chemical binding]; other site 1215088004993 PAS fold; Region: PAS_3; pfam08447 1215088004994 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1215088004995 PAS domain S-box; Region: sensory_box; TIGR00229 1215088004996 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 1215088004997 putative active site [active] 1215088004998 heme pocket [chemical binding]; other site 1215088004999 PAS domain S-box; Region: sensory_box; TIGR00229 1215088005000 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 1215088005001 putative active site [active] 1215088005002 heme pocket [chemical binding]; other site 1215088005003 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088005004 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088005005 metal binding site [ion binding]; metal-binding site 1215088005006 active site 1215088005007 I-site; other site 1215088005008 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 1215088005009 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088005010 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088005011 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 1215088005012 dimerization interface [polypeptide binding]; other site 1215088005013 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1215088005014 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1215088005015 substrate binding site [chemical binding]; other site 1215088005016 ligand binding site [chemical binding]; other site 1215088005017 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1215088005018 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 1215088005019 substrate binding site [chemical binding]; other site 1215088005020 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 1215088005021 S-adenosylmethionine binding site [chemical binding]; other site 1215088005022 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1215088005023 tartrate dehydrogenase; Region: TTC; TIGR02089 1215088005024 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1215088005025 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1215088005026 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 1215088005027 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1215088005028 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1215088005029 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1215088005030 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1215088005031 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1215088005032 dimerization interface 3.5A [polypeptide binding]; other site 1215088005033 active site 1215088005034 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 1215088005035 active site 1215088005036 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1215088005037 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1215088005038 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1215088005039 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1215088005040 Sporulation related domain; Region: SPOR; pfam05036 1215088005041 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1215088005042 Colicin V production protein; Region: Colicin_V; cl00567 1215088005043 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1215088005044 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 1215088005045 active site 1215088005046 tetramer interface [polypeptide binding]; other site 1215088005047 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1215088005048 active site 1215088005049 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1215088005050 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 1215088005051 homodimer interface [polypeptide binding]; other site 1215088005052 substrate-cofactor binding pocket; other site 1215088005053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088005054 catalytic residue [active] 1215088005055 oxidoreductase; Validated; Region: PRK05717 1215088005056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088005057 NAD(P) binding site [chemical binding]; other site 1215088005058 active site 1215088005059 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 1215088005060 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1215088005061 EamA-like transporter family; Region: EamA; pfam00892 1215088005062 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 1215088005063 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088005064 DNA-binding site [nucleotide binding]; DNA binding site 1215088005065 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 1215088005066 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088005067 homodimer interface [polypeptide binding]; other site 1215088005068 catalytic residue [active] 1215088005069 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1215088005070 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088005071 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088005072 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1215088005073 active site 1215088005074 catalytic triad [active] 1215088005075 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1215088005076 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 1215088005077 active site 1215088005078 FMN binding site [chemical binding]; other site 1215088005079 2,4-decadienoyl-CoA binding site; other site 1215088005080 catalytic residue [active] 1215088005081 4Fe-4S cluster binding site [ion binding]; other site 1215088005082 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1215088005083 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 1215088005084 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1215088005085 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 1215088005086 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 1215088005087 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1215088005088 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1215088005089 active site 1215088005090 metal binding site [ion binding]; metal-binding site 1215088005091 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1215088005092 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 1215088005093 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1215088005094 aminopeptidase N; Provisional; Region: pepN; PRK14015 1215088005095 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1215088005096 active site 1215088005097 Zn binding site [ion binding]; other site 1215088005098 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1215088005099 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1215088005100 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1215088005101 3-dehydroquinate synthase (EC 4.6.1.3); Region: DHQS; cl00640 1215088005102 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1215088005103 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 1215088005104 putative GSH binding site (G-site) [chemical binding]; other site 1215088005105 active site cysteine [active] 1215088005106 putative C-terminal domain interface [polypeptide binding]; other site 1215088005107 putative dimer interface [polypeptide binding]; other site 1215088005108 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1215088005109 N-terminal domain interface [polypeptide binding]; other site 1215088005110 dimer interface [polypeptide binding]; other site 1215088005111 substrate binding pocket (H-site) [chemical binding]; other site 1215088005112 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088005113 AAA domain; Region: AAA_23; pfam13476 1215088005114 Walker A/P-loop; other site 1215088005115 ATP binding site [chemical binding]; other site 1215088005116 Q-loop/lid; other site 1215088005117 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088005118 ABC transporter signature motif; other site 1215088005119 Walker B; other site 1215088005120 D-loop; other site 1215088005121 H-loop/switch region; other site 1215088005122 exonuclease subunit SbcD; Provisional; Region: PRK10966 1215088005123 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1215088005124 active site 1215088005125 metal binding site [ion binding]; metal-binding site 1215088005126 DNA binding site [nucleotide binding] 1215088005127 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1215088005128 potential frameshift: common BLAST hit: gi|148547832|ref|YP_001267934.1| YD repeat-containing protein 1215088005129 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1215088005130 Oxygen tolerance; Region: BatD; pfam13584 1215088005131 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 1215088005132 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1215088005133 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 1215088005134 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1215088005135 TPR motif; other site 1215088005136 binding surface 1215088005137 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 1215088005138 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 1215088005139 metal ion-dependent adhesion site (MIDAS); other site 1215088005140 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1215088005141 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1215088005142 Protein of unknown function DUF58; Region: DUF58; pfam01882 1215088005143 MoxR-like ATPases [General function prediction only]; Region: COG0714 1215088005144 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 1215088005145 Walker A motif; other site 1215088005146 ATP binding site [chemical binding]; other site 1215088005147 Walker B motif; other site 1215088005148 arginine finger; other site 1215088005149 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1215088005150 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088005151 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088005152 benzoate transporter; Region: benE; TIGR00843 1215088005153 Benzoate membrane transport protein; Region: BenE; pfam03594 1215088005154 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 1215088005155 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088005156 DNA-binding site [nucleotide binding]; DNA binding site 1215088005157 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 1215088005158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088005159 homodimer interface [polypeptide binding]; other site 1215088005160 catalytic residue [active] 1215088005161 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1215088005162 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1215088005163 inhibitor site; inhibition site 1215088005164 active site 1215088005165 dimer interface [polypeptide binding]; other site 1215088005166 catalytic residue [active] 1215088005167 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 1215088005168 intersubunit interface [polypeptide binding]; other site 1215088005169 active site 1215088005170 Zn2+ binding site [ion binding]; other site 1215088005171 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1215088005172 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1215088005173 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1215088005174 acyl-activating enzyme (AAE) consensus motif; other site 1215088005175 acyl-activating enzyme (AAE) consensus motif; other site 1215088005176 putative AMP binding site [chemical binding]; other site 1215088005177 putative active site [active] 1215088005178 putative CoA binding site [chemical binding]; other site 1215088005179 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1215088005180 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1215088005181 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1215088005182 active site 1215088005183 D-galactonate transporter; Region: 2A0114; TIGR00893 1215088005184 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088005185 putative substrate translocation pore; other site 1215088005186 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088005187 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088005188 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 1215088005189 putative dimerization interface [polypeptide binding]; other site 1215088005190 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1215088005191 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1215088005192 Domain of unknown function (DUF202); Region: DUF202; cl09954 1215088005193 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1215088005194 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1215088005195 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088005196 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088005197 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 1215088005198 dimerization interface [polypeptide binding]; other site 1215088005199 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1215088005200 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1215088005201 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1215088005202 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1215088005203 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1215088005204 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1215088005205 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088005206 active site 1215088005207 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1215088005208 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1215088005209 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1215088005210 putative active site [active] 1215088005211 metal binding site [ion binding]; metal-binding site 1215088005212 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 1215088005213 active site 1215088005214 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1215088005215 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 1215088005216 dimer interface [polypeptide binding]; other site 1215088005217 active site 1215088005218 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1215088005219 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 1215088005220 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 1215088005221 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1215088005222 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1215088005223 DNA binding residues [nucleotide binding] 1215088005224 dimer interface [polypeptide binding]; other site 1215088005225 [2Fe-2S] cluster binding site [ion binding]; other site 1215088005226 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1215088005227 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1215088005228 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088005229 multidrug efflux protein; Reviewed; Region: PRK09579 1215088005230 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1215088005231 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088005232 DNA-binding site [nucleotide binding]; DNA binding site 1215088005233 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1215088005234 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1215088005235 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088005236 Coenzyme A binding pocket [chemical binding]; other site 1215088005237 diaminopimelate decarboxylase; Provisional; Region: PRK11165 1215088005238 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1215088005239 active site 1215088005240 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1215088005241 substrate binding site [chemical binding]; other site 1215088005242 catalytic residues [active] 1215088005243 dimer interface [polypeptide binding]; other site 1215088005244 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1215088005245 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088005246 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 1215088005247 dimerization interface [polypeptide binding]; other site 1215088005248 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1215088005249 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1215088005250 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1215088005251 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1215088005252 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1215088005253 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1215088005254 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1215088005255 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1215088005256 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1215088005257 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1215088005258 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1215088005259 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1215088005260 Cl binding site [ion binding]; other site 1215088005261 oligomer interface [polypeptide binding]; other site 1215088005262 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 1215088005263 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088005264 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 1215088005265 DNA binding residues [nucleotide binding] 1215088005266 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1215088005267 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1215088005268 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088005269 ligand binding site [chemical binding]; other site 1215088005270 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1215088005271 active site 1215088005272 SAM binding site [chemical binding]; other site 1215088005273 homodimer interface [polypeptide binding]; other site 1215088005274 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 1215088005275 active site 1215088005276 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1215088005277 active site 1215088005278 ATP binding site [chemical binding]; other site 1215088005279 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1215088005280 substrate binding site [chemical binding]; other site 1215088005281 activation loop (A-loop); other site 1215088005282 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1215088005283 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1215088005284 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088005285 putative substrate translocation pore; other site 1215088005286 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1215088005287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088005288 active site 1215088005289 phosphorylation site [posttranslational modification] 1215088005290 intermolecular recognition site; other site 1215088005291 dimerization interface [polypeptide binding]; other site 1215088005292 ANTAR domain; Region: ANTAR; pfam03861 1215088005293 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1215088005294 NMT1-like family; Region: NMT1_2; pfam13379 1215088005295 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1215088005296 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 1215088005297 quinone interaction residues [chemical binding]; other site 1215088005298 active site 1215088005299 catalytic residues [active] 1215088005300 FMN binding site [chemical binding]; other site 1215088005301 substrate binding site [chemical binding]; other site 1215088005302 Ribosome modulation factor; Region: RMF; pfam04957 1215088005303 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1215088005304 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1215088005305 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 1215088005306 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 1215088005307 S-adenosylmethionine binding site [chemical binding]; other site 1215088005308 CHASE domain; Region: CHASE; pfam03924 1215088005309 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 1215088005310 PAS domain; Region: PAS_9; pfam13426 1215088005311 putative active site [active] 1215088005312 heme pocket [chemical binding]; other site 1215088005313 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 1215088005314 heme pocket [chemical binding]; other site 1215088005315 putative active site [active] 1215088005316 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088005317 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088005318 metal binding site [ion binding]; metal-binding site 1215088005319 active site 1215088005320 I-site; other site 1215088005321 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1215088005322 hypothetical protein; Provisional; Region: PRK11702 1215088005323 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1215088005324 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 1215088005325 substrate binding pocket [chemical binding]; other site 1215088005326 membrane-bound complex binding site; other site 1215088005327 hinge residues; other site 1215088005328 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088005329 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 1215088005330 substrate binding pocket [chemical binding]; other site 1215088005331 membrane-bound complex binding site; other site 1215088005332 hinge residues; other site 1215088005333 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1215088005334 PAS domain; Region: PAS; smart00091 1215088005335 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 1215088005336 dimer interface [polypeptide binding]; other site 1215088005337 phosphorylation site [posttranslational modification] 1215088005338 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 1215088005339 ATP binding site [chemical binding]; other site 1215088005340 Mg2+ binding site [ion binding]; other site 1215088005341 G-X-G motif; other site 1215088005342 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088005343 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088005344 active site 1215088005345 phosphorylation site [posttranslational modification] 1215088005346 intermolecular recognition site; other site 1215088005347 dimerization interface [polypeptide binding]; other site 1215088005348 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088005349 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088005350 active site 1215088005351 phosphorylation site [posttranslational modification] 1215088005352 intermolecular recognition site; other site 1215088005353 dimerization interface [polypeptide binding]; other site 1215088005354 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 1215088005355 DNA binding residues [nucleotide binding] 1215088005356 dimerization interface [polypeptide binding]; other site 1215088005357 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 1215088005358 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1215088005359 Zn2+ binding site [ion binding]; other site 1215088005360 Mg2+ binding site [ion binding]; other site 1215088005361 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1215088005362 Predicted membrane protein [Function unknown]; Region: COG5393 1215088005363 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1215088005364 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1215088005365 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1215088005366 Peptidase M15; Region: Peptidase_M15_3; pfam08291 1215088005367 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1215088005368 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1215088005369 probable active site [active] 1215088005370 PAS domain; Region: PAS_9; pfam13426 1215088005371 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 1215088005372 putative active site [active] 1215088005373 heme pocket [chemical binding]; other site 1215088005374 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088005375 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088005376 dimer interface [polypeptide binding]; other site 1215088005377 putative CheW interface [polypeptide binding]; other site 1215088005378 potential frameshift: common BLAST hit: gi|339486601|ref|YP_004701129.1| CAAX amino terminal protease 1215088005379 aconitate hydratase; Validated; Region: PRK09277 1215088005380 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1215088005381 substrate binding site [chemical binding]; other site 1215088005382 ligand binding site [chemical binding]; other site 1215088005383 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 1215088005384 substrate binding site [chemical binding]; other site 1215088005385 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1215088005386 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1215088005387 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 1215088005388 CPxP motif; other site 1215088005389 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1215088005390 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1215088005391 ligand binding site [chemical binding]; other site 1215088005392 NAD binding site [chemical binding]; other site 1215088005393 catalytic site [active] 1215088005394 homodimer interface [polypeptide binding]; other site 1215088005395 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1215088005396 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1215088005397 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088005398 Walker A/P-loop; other site 1215088005399 ATP binding site [chemical binding]; other site 1215088005400 Q-loop/lid; other site 1215088005401 ABC transporter signature motif; other site 1215088005402 Walker B; other site 1215088005403 D-loop; other site 1215088005404 H-loop/switch region; other site 1215088005405 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 1215088005406 dimerization interface [polypeptide binding]; other site 1215088005407 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088005408 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088005409 dimer interface [polypeptide binding]; other site 1215088005410 putative CheW interface [polypeptide binding]; other site 1215088005411 malate:quinone oxidoreductase; Validated; Region: PRK05257 1215088005412 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1215088005413 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1215088005414 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 1215088005415 MPT binding site; other site 1215088005416 trimer interface [polypeptide binding]; other site 1215088005417 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1215088005418 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 1215088005419 dimer interface [polypeptide binding]; other site 1215088005420 putative functional site; other site 1215088005421 putative MPT binding site; other site 1215088005422 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 1215088005423 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1215088005424 lipid kinase; Reviewed; Region: PRK13054 1215088005425 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1215088005426 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088005427 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088005428 active site 1215088005429 phosphorylation site [posttranslational modification] 1215088005430 intermolecular recognition site; other site 1215088005431 dimerization interface [polypeptide binding]; other site 1215088005432 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 1215088005433 DNA binding residues [nucleotide binding] 1215088005434 dimerization interface [polypeptide binding]; other site 1215088005435 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1215088005436 Histidine kinase; Region: HisKA_3; pfam07730 1215088005437 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 1215088005438 ATP binding site [chemical binding]; other site 1215088005439 Mg2+ binding site [ion binding]; other site 1215088005440 G-X-G motif; other site 1215088005441 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1215088005442 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1215088005443 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088005444 active site 1215088005445 phosphorylation site [posttranslational modification] 1215088005446 intermolecular recognition site; other site 1215088005447 dimerization interface [polypeptide binding]; other site 1215088005448 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1215088005449 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1215088005450 MOSC domain; Region: MOSC; pfam03473 1215088005451 lytic murein transglycosylase; Provisional; Region: PRK11619 1215088005452 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 1215088005453 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1215088005454 catalytic residue [active] 1215088005455 ABC transporter ATPase component; Reviewed; Region: PRK11147 1215088005456 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1215088005457 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1215088005458 ABC transporter; Region: ABC_tran_2; pfam12848 1215088005459 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1215088005460 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 1215088005461 Ligand Binding Site [chemical binding]; other site 1215088005462 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1215088005463 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 1215088005464 substrate binding site [chemical binding]; other site 1215088005465 oxyanion hole (OAH) forming residues; other site 1215088005466 trimer interface [polypeptide binding]; other site 1215088005467 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1215088005468 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1215088005469 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1215088005470 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 1215088005471 dimer interface [polypeptide binding]; other site 1215088005472 active site 1215088005473 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1215088005474 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1215088005475 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 1215088005476 active site 1215088005477 interdomain interaction site; other site 1215088005478 putative metal-binding site [ion binding]; other site 1215088005479 nucleotide binding site [chemical binding]; other site 1215088005480 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 1215088005481 domain I; other site 1215088005482 DNA binding groove [nucleotide binding] 1215088005483 phosphate binding site [ion binding]; other site 1215088005484 domain II; other site 1215088005485 domain III; other site 1215088005486 nucleotide binding site [chemical binding]; other site 1215088005487 catalytic site [active] 1215088005488 domain IV; other site 1215088005489 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1215088005490 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1215088005491 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1215088005492 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1215088005493 Cell division inhibitor SulA; Region: SulA; cl01880 1215088005494 LexA repressor; Validated; Region: PRK00215 1215088005495 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1215088005496 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 1215088005497 Catalytic site [active] 1215088005498 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088005499 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088005500 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 1215088005501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1215088005502 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1215088005503 beta-hexosaminidase; Provisional; Region: PRK05337 1215088005504 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1215088005505 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1215088005506 beta-hexosaminidase; Provisional; Region: PRK05337 1215088005507 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1215088005508 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 1215088005509 ATP binding site [chemical binding]; other site 1215088005510 putative Mg++ binding site [ion binding]; other site 1215088005511 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 1215088005512 nucleotide binding region [chemical binding]; other site 1215088005513 ATP-binding site [chemical binding]; other site 1215088005514 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1215088005515 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1215088005516 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1215088005517 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 1215088005518 ATP binding site [chemical binding]; other site 1215088005519 putative Mg++ binding site [ion binding]; other site 1215088005520 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 1215088005521 nucleotide binding region [chemical binding]; other site 1215088005522 ATP-binding site [chemical binding]; other site 1215088005523 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1215088005524 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1215088005525 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1215088005526 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1215088005527 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1215088005528 ApbE family; Region: ApbE; pfam02424 1215088005529 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1215088005530 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088005531 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1215088005532 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1215088005533 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1215088005534 active site 1215088005535 catalytic site [active] 1215088005536 metal binding site [ion binding]; metal-binding site 1215088005537 PilZ domain; Region: PilZ; pfam07238 1215088005538 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1215088005539 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1215088005540 FtsX-like permease family; Region: FtsX; pfam02687 1215088005541 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1215088005542 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1215088005543 Walker A/P-loop; other site 1215088005544 ATP binding site [chemical binding]; other site 1215088005545 Q-loop/lid; other site 1215088005546 ABC transporter signature motif; other site 1215088005547 Walker B; other site 1215088005548 D-loop; other site 1215088005549 H-loop/switch region; other site 1215088005550 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1215088005551 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1215088005552 FtsX-like permease family; Region: FtsX; pfam02687 1215088005553 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1215088005554 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1215088005555 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 1215088005556 dimer interface [polypeptide binding]; other site 1215088005557 phosphorylation site [posttranslational modification] 1215088005558 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 1215088005559 ATP binding site [chemical binding]; other site 1215088005560 Mg2+ binding site [ion binding]; other site 1215088005561 G-X-G motif; other site 1215088005562 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1215088005563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088005564 active site 1215088005565 phosphorylation site [posttranslational modification] 1215088005566 intermolecular recognition site; other site 1215088005567 dimerization interface [polypeptide binding]; other site 1215088005568 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 1215088005569 DNA binding site [nucleotide binding] 1215088005570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1215088005571 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1215088005572 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1215088005573 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 1215088005574 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1215088005575 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1215088005576 PilZ domain; Region: PilZ; pfam07238 1215088005577 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088005578 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088005579 active site 1215088005580 phosphorylation site [posttranslational modification] 1215088005581 intermolecular recognition site; other site 1215088005582 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1215088005583 dimerization interface [polypeptide binding]; other site 1215088005584 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1215088005585 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 1215088005586 anti sigma factor interaction site; other site 1215088005587 regulatory phosphorylation site [posttranslational modification]; other site 1215088005588 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1215088005589 metal binding site [ion binding]; metal-binding site 1215088005590 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1215088005591 putative active site [active] 1215088005592 putative metal binding site [ion binding]; other site 1215088005593 transaldolase-like protein; Provisional; Region: PTZ00411 1215088005594 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1215088005595 active site 1215088005596 dimer interface [polypeptide binding]; other site 1215088005597 catalytic residue [active] 1215088005598 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1215088005599 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 1215088005600 FMN binding site [chemical binding]; other site 1215088005601 active site 1215088005602 catalytic residues [active] 1215088005603 substrate binding site [chemical binding]; other site 1215088005604 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 1215088005605 active site 1215088005606 DNA binding site [nucleotide binding] 1215088005607 Int/Topo IB signature motif; other site 1215088005608 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 1215088005609 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1215088005610 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1215088005611 DNA binding site [nucleotide binding] 1215088005612 substrate interaction site [chemical binding]; other site 1215088005613 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1215088005614 exodeoxyribonuclease X; Provisional; Region: PRK07983 1215088005615 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1215088005616 active site 1215088005617 catalytic site [active] 1215088005618 substrate binding site [chemical binding]; other site 1215088005619 Cro; Region: Cro; pfam09048 1215088005620 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 1215088005621 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1215088005622 replicative DNA helicase; Region: DnaB; TIGR00665 1215088005623 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 1215088005624 Walker A motif; other site 1215088005625 ATP binding site [chemical binding]; other site 1215088005626 Walker B motif; other site 1215088005627 DNA binding loops [nucleotide binding] 1215088005628 Phage endonuclease I; Region: Phage_endo_I; cl11622 1215088005629 NinB protein; Region: NinB; pfam05772 1215088005630 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1215088005631 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1215088005632 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1215088005633 catalytic residue [active] 1215088005634 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 1215088005635 Terminase small subunit; Region: Terminase_2; pfam03592 1215088005636 hypothetical protein; Region: PHA00670 1215088005637 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 1215088005638 putative protease; Region: PHA00666 1215088005639 major capsid protein; Region: PHA00665 1215088005640 hypothetical protein; Region: PHA00664 1215088005641 hypothetical protein; Region: PHA00662 1215088005642 hypothetical protein; Region: PHA00661 1215088005643 hypothetical protein; Region: PHA01733 1215088005644 structural protein; Region: PHA01972 1215088005645 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1215088005646 active site 1215088005647 oxyanion hole [active] 1215088005648 potential frameshift: common BLAST hit: gi|339486660|ref|YP_004701188.1| chorismate mutase family protein 1215088005649 potential frameshift: common BLAST hit: gi|386012294|ref|YP_005930571.1| DNA-directed DNA polymerase 1215088005650 Hypothetical protein; Provisional; Region: PHA03065 1215088005651 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088005652 Walker B; other site 1215088005653 D-loop; other site 1215088005654 H-loop/switch region; other site 1215088005655 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088005656 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088005657 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088005658 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 1215088005659 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1215088005660 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1215088005661 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1215088005662 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1215088005663 active site 1215088005664 catalytic site [active] 1215088005665 tetramer interface [polypeptide binding]; other site 1215088005666 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088005667 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1215088005668 Coenzyme A binding pocket [chemical binding]; other site 1215088005669 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1215088005670 potential frameshift: common BLAST hit: gi|378706695|ref|YP_005271589.1| RNA binding S1 domain-containing protein 1215088005671 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 1215088005672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3575 1215088005673 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088005674 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 1215088005675 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 1215088005676 active site 1215088005677 dimer interface [polypeptide binding]; other site 1215088005678 non-prolyl cis peptide bond; other site 1215088005679 insertion regions; other site 1215088005680 Uncharacterized protein family (UPF0183); Region: UPF0183; pfam03676 1215088005681 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 1215088005682 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 1215088005683 putative dimer interface [polypeptide binding]; other site 1215088005684 [2Fe-2S] cluster binding site [ion binding]; other site 1215088005685 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 1215088005686 putative dimer interface [polypeptide binding]; other site 1215088005687 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1215088005688 SLBB domain; Region: SLBB; pfam10531 1215088005689 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1215088005690 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1215088005691 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 1215088005692 catalytic loop [active] 1215088005693 iron binding site [ion binding]; other site 1215088005694 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1215088005695 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 1215088005696 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 1215088005697 [4Fe-4S] binding site [ion binding]; other site 1215088005698 molybdopterin cofactor binding site; other site 1215088005699 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 1215088005700 molybdopterin cofactor binding site; other site 1215088005701 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1215088005702 universal stress protein UspE; Provisional; Region: PRK11175 1215088005703 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 1215088005704 Ligand Binding Site [chemical binding]; other site 1215088005705 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 1215088005706 Ligand Binding Site [chemical binding]; other site 1215088005707 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1215088005708 active site 1215088005709 dinuclear metal binding site [ion binding]; other site 1215088005710 dimerization interface [polypeptide binding]; other site 1215088005711 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1215088005712 Water Stress and Hypersensitive response; Region: WHy; smart00769 1215088005713 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088005714 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1215088005715 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 1215088005716 DNA binding residues [nucleotide binding] 1215088005717 FecR protein; Region: FecR; pfam04773 1215088005718 Secretin and TonB N terminus short domain; Region: STN; smart00965 1215088005719 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1215088005720 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 1215088005721 N-terminal plug; other site 1215088005722 ligand-binding site [chemical binding]; other site 1215088005723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088005724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088005725 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1215088005726 dimerization interface [polypeptide binding]; other site 1215088005727 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1215088005728 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1215088005729 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1215088005730 agmatinase; Region: agmatinase; TIGR01230 1215088005731 oligomer interface [polypeptide binding]; other site 1215088005732 putative active site [active] 1215088005733 Mn binding site [ion binding]; other site 1215088005734 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1215088005735 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1215088005736 Predicted ATPase [General function prediction only]; Region: COG1485 1215088005737 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 1215088005738 Walker A motif; other site 1215088005739 ATP binding site [chemical binding]; other site 1215088005740 Walker B motif; other site 1215088005741 arginine finger; other site 1215088005742 DinB family; Region: DinB; cl17821 1215088005743 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 1215088005744 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1215088005745 Predicted membrane protein [Function unknown]; Region: COG1238 1215088005746 Protein of unknown function, DUF; Region: DUF411; cl01142 1215088005747 putative protease; Provisional; Region: PRK15452 1215088005748 Peptidase family U32; Region: Peptidase_U32; pfam01136 1215088005749 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1215088005750 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1215088005751 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1215088005752 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 1215088005753 motif II; other site 1215088005754 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1215088005755 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1215088005756 catalytic residue [active] 1215088005757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088005758 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1215088005759 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 1215088005760 dimerization interface [polypeptide binding]; other site 1215088005761 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1215088005762 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088005763 SurA N-terminal domain; Region: SurA_N; pfam09312 1215088005764 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088005765 Leucine rich repeat; Region: LRR_8; pfam13855 1215088005766 Leucine rich repeat; Region: LRR_8; pfam13855 1215088005767 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 1215088005768 Leucine rich repeat; Region: LRR_8; pfam13855 1215088005769 Leucine rich repeat; Region: LRR_8; pfam13855 1215088005770 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1215088005771 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 1215088005772 active site 1215088005773 acyl-activating enzyme (AAE) consensus motif; other site 1215088005774 putative CoA binding site [chemical binding]; other site 1215088005775 AMP binding site [chemical binding]; other site 1215088005776 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1215088005777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088005778 NAD(P) binding site [chemical binding]; other site 1215088005779 active site 1215088005780 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1215088005781 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 1215088005782 dimer interface [polypeptide binding]; other site 1215088005783 active site 1215088005784 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1215088005785 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 1215088005786 FAD binding site [chemical binding]; other site 1215088005787 homotetramer interface [polypeptide binding]; other site 1215088005788 substrate binding pocket [chemical binding]; other site 1215088005789 catalytic base [active] 1215088005790 enoyl-CoA hydratase; Provisional; Region: PRK05862 1215088005791 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 1215088005792 substrate binding site [chemical binding]; other site 1215088005793 oxyanion hole (OAH) forming residues; other site 1215088005794 trimer interface [polypeptide binding]; other site 1215088005795 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1215088005796 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1215088005797 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1215088005798 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1215088005799 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1215088005800 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1215088005801 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1215088005802 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1215088005803 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1215088005804 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1215088005805 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1215088005806 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1215088005807 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1215088005808 EamA-like transporter family; Region: EamA; pfam00892 1215088005809 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1215088005810 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 1215088005811 non-specific DNA binding site [nucleotide binding]; other site 1215088005812 salt bridge; other site 1215088005813 sequence-specific DNA binding site [nucleotide binding]; other site 1215088005814 Cupin domain; Region: Cupin_2; pfam07883 1215088005815 Isochorismatase family; Region: Isochorismatase; pfam00857 1215088005816 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 1215088005817 catalytic triad [active] 1215088005818 conserved cis-peptide bond; other site 1215088005819 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1215088005820 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1215088005821 conserved cys residue [active] 1215088005822 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088005823 potential frameshift: common BLAST hit: gi|26988960|ref|NP_744385.1| prolyl oligopeptidase 1215088005824 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 1215088005825 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1215088005826 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1215088005827 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 1215088005828 active site 1215088005829 threonine and homoserine efflux system; Provisional; Region: PRK10532 1215088005830 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1215088005831 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1215088005832 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1215088005833 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088005834 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088005835 putative substrate translocation pore; other site 1215088005836 outer membrane receptor FepA; Provisional; Region: PRK13524 1215088005837 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 1215088005838 N-terminal plug; other site 1215088005839 ligand-binding site [chemical binding]; other site 1215088005840 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 1215088005841 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1215088005842 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1215088005843 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 1215088005844 non-specific DNA binding site [nucleotide binding]; other site 1215088005845 salt bridge; other site 1215088005846 sequence-specific DNA binding site [nucleotide binding]; other site 1215088005847 Cupin domain; Region: Cupin_2; pfam07883 1215088005848 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1215088005849 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088005850 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 1215088005851 homotrimer interaction site [polypeptide binding]; other site 1215088005852 putative active site [active] 1215088005853 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1215088005854 Cache domain; Region: Cache_1; pfam02743 1215088005855 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 1215088005856 dimerization interface [polypeptide binding]; other site 1215088005857 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088005858 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088005859 dimer interface [polypeptide binding]; other site 1215088005860 putative CheW interface [polypeptide binding]; other site 1215088005861 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088005862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088005863 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 1215088005864 dimerization interface [polypeptide binding]; other site 1215088005865 Predicted membrane protein [Function unknown]; Region: COG4125 1215088005866 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1215088005867 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1215088005868 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1215088005869 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088005870 DNA-binding site [nucleotide binding]; DNA binding site 1215088005871 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1215088005872 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1215088005873 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088005874 DNA-binding site [nucleotide binding]; DNA binding site 1215088005875 FCD domain; Region: FCD; pfam07729 1215088005876 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 1215088005877 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1215088005878 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 1215088005879 PAS fold; Region: PAS_3; pfam08447 1215088005880 putative active site [active] 1215088005881 heme pocket [chemical binding]; other site 1215088005882 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088005883 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088005884 dimer interface [polypeptide binding]; other site 1215088005885 putative CheW interface [polypeptide binding]; other site 1215088005886 PAS domain; Region: PAS_9; pfam13426 1215088005887 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 1215088005888 putative active site [active] 1215088005889 heme pocket [chemical binding]; other site 1215088005890 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088005891 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088005892 metal binding site [ion binding]; metal-binding site 1215088005893 active site 1215088005894 I-site; other site 1215088005895 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 1215088005896 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1215088005897 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1215088005898 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088005899 ornithine cyclodeaminase; Validated; Region: PRK07589 1215088005900 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1215088005901 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1215088005902 GAF domain; Region: GAF; pfam01590 1215088005903 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 1215088005904 Walker A motif; other site 1215088005905 ATP binding site [chemical binding]; other site 1215088005906 Walker B motif; other site 1215088005907 arginine finger; other site 1215088005908 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088005909 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1215088005910 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1215088005911 Walker A/P-loop; other site 1215088005912 ATP binding site [chemical binding]; other site 1215088005913 Q-loop/lid; other site 1215088005914 ABC transporter signature motif; other site 1215088005915 Walker B; other site 1215088005916 D-loop; other site 1215088005917 H-loop/switch region; other site 1215088005918 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1215088005919 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1215088005920 Walker A/P-loop; other site 1215088005921 ATP binding site [chemical binding]; other site 1215088005922 Q-loop/lid; other site 1215088005923 ABC transporter signature motif; other site 1215088005924 Walker B; other site 1215088005925 D-loop; other site 1215088005926 H-loop/switch region; other site 1215088005927 TOBE domain; Region: TOBE; pfam03459 1215088005928 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1215088005929 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 1215088005930 dimer interface [polypeptide binding]; other site 1215088005931 conserved gate region; other site 1215088005932 putative PBP binding loops; other site 1215088005933 ABC-ATPase subunit interface; other site 1215088005934 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1215088005935 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 1215088005936 dimer interface [polypeptide binding]; other site 1215088005937 conserved gate region; other site 1215088005938 putative PBP binding loops; other site 1215088005939 ABC-ATPase subunit interface; other site 1215088005940 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 1215088005941 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1215088005942 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1215088005943 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1215088005944 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1215088005945 homodimer interface [polypeptide binding]; other site 1215088005946 NADP binding site [chemical binding]; other site 1215088005947 substrate binding site [chemical binding]; other site 1215088005948 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 1215088005949 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 1215088005950 trigger factor; Provisional; Region: tig; PRK01490 1215088005951 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1215088005952 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1215088005953 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1215088005954 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1215088005955 oligomer interface [polypeptide binding]; other site 1215088005956 active site residues [active] 1215088005957 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1215088005958 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1215088005959 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 1215088005960 Walker A motif; other site 1215088005961 ATP binding site [chemical binding]; other site 1215088005962 Walker B motif; other site 1215088005963 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1215088005964 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1215088005965 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1215088005966 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 1215088005967 Walker A motif; other site 1215088005968 ATP binding site [chemical binding]; other site 1215088005969 Walker B motif; other site 1215088005970 arginine finger; other site 1215088005971 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1215088005972 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 1215088005973 IHF dimer interface [polypeptide binding]; other site 1215088005974 IHF - DNA interface [nucleotide binding]; other site 1215088005975 periplasmic folding chaperone; Provisional; Region: PRK10788 1215088005976 SurA N-terminal domain; Region: SurA_N_3; pfam13624 1215088005977 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1215088005978 hypothetical protein; Provisional; Region: PRK10279 1215088005979 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1215088005980 active site 1215088005981 nucleophile elbow; other site 1215088005982 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 1215088005983 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1215088005984 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 1215088005985 active site 1215088005986 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 1215088005987 active site 2 [active] 1215088005988 active site 1 [active] 1215088005989 Terminase small subunit; Region: Terminase_2; cl01513 1215088005990 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 1215088005991 dimerization interface [polypeptide binding]; other site 1215088005992 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088005993 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088005994 dimer interface [polypeptide binding]; other site 1215088005995 putative CheW interface [polypeptide binding]; other site 1215088005996 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1215088005997 active site 1215088005998 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 1215088005999 substrate binding pocket [chemical binding]; other site 1215088006000 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1215088006001 membrane-bound complex binding site; other site 1215088006002 hinge residues; other site 1215088006003 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 1215088006004 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1215088006005 catalytic residue [active] 1215088006006 Predicted membrane protein [Function unknown]; Region: COG2259 1215088006007 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1215088006008 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1215088006009 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1215088006010 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1215088006011 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1215088006012 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1215088006013 Walker A/P-loop; other site 1215088006014 ATP binding site [chemical binding]; other site 1215088006015 Q-loop/lid; other site 1215088006016 ABC transporter signature motif; other site 1215088006017 Walker B; other site 1215088006018 D-loop; other site 1215088006019 H-loop/switch region; other site 1215088006020 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 1215088006021 active site 1215088006022 catalytic triad [active] 1215088006023 oxyanion hole [active] 1215088006024 switch loop; other site 1215088006025 L,D-transpeptidase; Provisional; Region: PRK10260 1215088006026 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1215088006027 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088006028 Coenzyme A binding pocket [chemical binding]; other site 1215088006029 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1215088006030 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1215088006031 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 1215088006032 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1215088006033 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1215088006034 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 1215088006035 Ligand Binding Site [chemical binding]; other site 1215088006036 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1215088006037 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088006038 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1215088006039 substrate binding site [chemical binding]; other site 1215088006040 dimerization interface [polypeptide binding]; other site 1215088006041 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1215088006042 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 1215088006043 Active Sites [active] 1215088006044 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1215088006045 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1215088006046 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1215088006047 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 1215088006048 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 1215088006049 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 1215088006050 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1215088006051 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1215088006052 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088006053 DNA-binding site [nucleotide binding]; DNA binding site 1215088006054 FCD domain; Region: FCD; pfam07729 1215088006055 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1215088006056 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 1215088006057 tetramer interface [polypeptide binding]; other site 1215088006058 active site 1215088006059 Mg2+/Mn2+ binding site [ion binding]; other site 1215088006060 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1215088006061 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 1215088006062 dimer interface [polypeptide binding]; other site 1215088006063 active site 1215088006064 citrylCoA binding site [chemical binding]; other site 1215088006065 oxalacetate/citrate binding site [chemical binding]; other site 1215088006066 coenzyme A binding site [chemical binding]; other site 1215088006067 catalytic triad [active] 1215088006068 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1215088006069 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1215088006070 substrate binding site [chemical binding]; other site 1215088006071 ligand binding site [chemical binding]; other site 1215088006072 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 1215088006073 substrate binding site [chemical binding]; other site 1215088006074 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1215088006075 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1215088006076 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1215088006077 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1215088006078 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 1215088006079 substrate binding site [chemical binding]; other site 1215088006080 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1215088006081 substrate binding site [chemical binding]; other site 1215088006082 ligand binding site [chemical binding]; other site 1215088006083 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1215088006084 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1215088006085 active site 1215088006086 Predicted membrane protein [Function unknown]; Region: COG3212 1215088006087 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1215088006088 Predicted membrane protein [Function unknown]; Region: COG3212 1215088006089 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1215088006090 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1215088006091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088006092 active site 1215088006093 phosphorylation site [posttranslational modification] 1215088006094 intermolecular recognition site; other site 1215088006095 dimerization interface [polypeptide binding]; other site 1215088006096 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 1215088006097 DNA binding site [nucleotide binding] 1215088006098 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088006099 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 1215088006100 ATP binding site [chemical binding]; other site 1215088006101 Mg2+ binding site [ion binding]; other site 1215088006102 G-X-G motif; other site 1215088006103 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1215088006104 HPP family; Region: HPP; pfam04982 1215088006105 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1215088006106 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 1215088006107 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088006108 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088006109 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1215088006110 dimerization interface [polypeptide binding]; other site 1215088006111 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1215088006112 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1215088006113 acyl-activating enzyme (AAE) consensus motif; other site 1215088006114 putative AMP binding site [chemical binding]; other site 1215088006115 putative active site [active] 1215088006116 putative CoA binding site [chemical binding]; other site 1215088006117 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 1215088006118 Predicted ATPase [General function prediction only]; Region: COG1485 1215088006119 Walker A motif; other site 1215088006120 ATP binding site [chemical binding]; other site 1215088006121 Walker B motif; other site 1215088006122 arginine finger; other site 1215088006123 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 1215088006124 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1215088006125 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088006126 active site 1215088006127 phosphorylation site [posttranslational modification] 1215088006128 intermolecular recognition site; other site 1215088006129 dimerization interface [polypeptide binding]; other site 1215088006130 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 1215088006131 PAS fold; Region: PAS_3; pfam08447 1215088006132 putative active site [active] 1215088006133 heme pocket [chemical binding]; other site 1215088006134 PAS fold; Region: PAS_4; pfam08448 1215088006135 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 1215088006136 dimer interface [polypeptide binding]; other site 1215088006137 phosphorylation site [posttranslational modification] 1215088006138 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 1215088006139 ATP binding site [chemical binding]; other site 1215088006140 Mg2+ binding site [ion binding]; other site 1215088006141 G-X-G motif; other site 1215088006142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088006143 active site 1215088006144 phosphorylation site [posttranslational modification] 1215088006145 intermolecular recognition site; other site 1215088006146 dimerization interface [polypeptide binding]; other site 1215088006147 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1215088006148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088006149 active site 1215088006150 phosphorylation site [posttranslational modification] 1215088006151 intermolecular recognition site; other site 1215088006152 dimerization interface [polypeptide binding]; other site 1215088006153 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1215088006154 GAF domain; Region: GAF; pfam01590 1215088006155 Phytochrome region; Region: PHY; pfam00360 1215088006156 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 1215088006157 dimer interface [polypeptide binding]; other site 1215088006158 phosphorylation site [posttranslational modification] 1215088006159 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 1215088006160 ATP binding site [chemical binding]; other site 1215088006161 Mg2+ binding site [ion binding]; other site 1215088006162 G-X-G motif; other site 1215088006163 Spore Coat Protein U domain; Region: SCPU; pfam05229 1215088006164 Spore Coat Protein U domain; Region: SCPU; pfam05229 1215088006165 Spore Coat Protein U domain; Region: SCPU; pfam05229 1215088006166 Spore Coat Protein U domain; Region: SCPU; pfam05229 1215088006167 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1215088006168 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1215088006169 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1215088006170 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1215088006171 PapC N-terminal domain; Region: PapC_N; pfam13954 1215088006172 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1215088006173 PapC C-terminal domain; Region: PapC_C; pfam13953 1215088006174 Spore Coat Protein U domain; Region: SCPU; pfam05229 1215088006175 Spore Coat Protein U domain; Region: SCPU; pfam05229 1215088006176 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1215088006177 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1215088006178 active site 1215088006179 Zn binding site [ion binding]; other site 1215088006180 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1215088006181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088006182 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088006183 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088006184 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088006185 putative substrate translocation pore; other site 1215088006186 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088006187 VacJ like lipoprotein; Region: VacJ; cl01073 1215088006188 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1215088006189 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088006190 active site 1215088006191 phosphorylation site [posttranslational modification] 1215088006192 intermolecular recognition site; other site 1215088006193 dimerization interface [polypeptide binding]; other site 1215088006194 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 1215088006195 DNA binding site [nucleotide binding] 1215088006196 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 1215088006197 dimer interface [polypeptide binding]; other site 1215088006198 phosphorylation site [posttranslational modification] 1215088006199 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 1215088006200 ATP binding site [chemical binding]; other site 1215088006201 Mg2+ binding site [ion binding]; other site 1215088006202 G-X-G motif; other site 1215088006203 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1215088006204 SnoaL-like domain; Region: SnoaL_2; pfam12680 1215088006205 potential frameshift: common BLAST hit: gi|387903990|ref|YP_006334328.1| coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin 1215088006206 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 1215088006207 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1215088006208 active site 1215088006209 catalytic tetrad [active] 1215088006210 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1215088006211 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1215088006212 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1215088006213 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1215088006214 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_13; cd06324 1215088006215 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1215088006216 putative ligand binding site [chemical binding]; other site 1215088006217 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1215088006218 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1215088006219 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1215088006220 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 1215088006221 substrate binding pocket [chemical binding]; other site 1215088006222 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 1215088006223 B12 binding site [chemical binding]; other site 1215088006224 cobalt ligand [ion binding]; other site 1215088006225 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1215088006226 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1215088006227 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1215088006228 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1215088006229 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 1215088006230 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1215088006231 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1215088006232 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 1215088006233 Cu(I) binding site [ion binding]; other site 1215088006234 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1215088006235 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1215088006236 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088006237 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088006238 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088006239 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1215088006240 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1215088006241 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1215088006242 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1215088006243 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 1215088006244 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088006245 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088006246 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 1215088006247 dimerization interface [polypeptide binding]; other site 1215088006248 DNA polymerase II; Reviewed; Region: PRK05762 1215088006249 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1215088006250 active site 1215088006251 catalytic site [active] 1215088006252 substrate binding site [chemical binding]; other site 1215088006253 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 1215088006254 active site 1215088006255 metal-binding site 1215088006256 Leucine rich repeat; Region: LRR_8; pfam13855 1215088006257 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 1215088006258 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1215088006259 EF-hand domain pair; Region: EF_hand_5; pfam13499 1215088006260 Ca2+ binding site [ion binding]; other site 1215088006261 hypothetical protein; Provisional; Region: PRK05409 1215088006262 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1215088006263 Predicted membrane protein [Function unknown]; Region: COG2259 1215088006264 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088006265 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 1215088006266 dimer interface [polypeptide binding]; other site 1215088006267 phosphorylation site [posttranslational modification] 1215088006268 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 1215088006269 ATP binding site [chemical binding]; other site 1215088006270 Mg2+ binding site [ion binding]; other site 1215088006271 G-X-G motif; other site 1215088006272 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1215088006273 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088006274 active site 1215088006275 phosphorylation site [posttranslational modification] 1215088006276 intermolecular recognition site; other site 1215088006277 dimerization interface [polypeptide binding]; other site 1215088006278 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 1215088006279 DNA binding site [nucleotide binding] 1215088006280 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1215088006281 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 1215088006282 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1215088006283 catalytic residues [active] 1215088006284 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 1215088006285 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1215088006286 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1215088006287 shikimate binding site; other site 1215088006288 NAD(P) binding site [chemical binding]; other site 1215088006289 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 1215088006290 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1215088006291 trimer interface [polypeptide binding]; other site 1215088006292 active site 1215088006293 dimer interface [polypeptide binding]; other site 1215088006294 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1215088006295 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1215088006296 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088006297 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1215088006298 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088006299 metabolite-proton symporter; Region: 2A0106; TIGR00883 1215088006300 putative substrate translocation pore; other site 1215088006301 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1215088006302 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 1215088006303 N-terminal plug; other site 1215088006304 ligand-binding site [chemical binding]; other site 1215088006305 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1215088006306 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1215088006307 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 1215088006308 P-loop; other site 1215088006309 Magnesium ion binding site [ion binding]; other site 1215088006310 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 1215088006311 Magnesium ion binding site [ion binding]; other site 1215088006312 Cache domain; Region: Cache_1; pfam02743 1215088006313 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088006314 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088006315 metal binding site [ion binding]; metal-binding site 1215088006316 active site 1215088006317 I-site; other site 1215088006318 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088006319 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1215088006320 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1215088006321 Walker A/P-loop; other site 1215088006322 ATP binding site [chemical binding]; other site 1215088006323 Q-loop/lid; other site 1215088006324 ABC transporter signature motif; other site 1215088006325 Walker B; other site 1215088006326 D-loop; other site 1215088006327 H-loop/switch region; other site 1215088006328 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1215088006329 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 1215088006330 ABC-ATPase subunit interface; other site 1215088006331 dimer interface [polypeptide binding]; other site 1215088006332 putative PBP binding regions; other site 1215088006333 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 1215088006334 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1215088006335 putative ligand binding residues [chemical binding]; other site 1215088006336 Predicted membrane protein [Function unknown]; Region: COG3503 1215088006337 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1215088006338 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 1215088006339 N-terminal plug; other site 1215088006340 ligand-binding site [chemical binding]; other site 1215088006341 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1215088006342 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088006343 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 1215088006344 putative dimerization interface [polypeptide binding]; other site 1215088006345 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1215088006346 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 1215088006347 putative active site [active] 1215088006348 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088006349 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088006350 Sporulation related domain; Region: SPOR; pfam05036 1215088006351 HD domain; Region: HD_4; pfam13328 1215088006352 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 1215088006353 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 1215088006354 homodimer interface [polypeptide binding]; other site 1215088006355 active site 1215088006356 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 1215088006357 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1215088006358 ligand binding site [chemical binding]; other site 1215088006359 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1215088006360 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1215088006361 Walker A/P-loop; other site 1215088006362 ATP binding site [chemical binding]; other site 1215088006363 Q-loop/lid; other site 1215088006364 ABC transporter signature motif; other site 1215088006365 Walker B; other site 1215088006366 D-loop; other site 1215088006367 H-loop/switch region; other site 1215088006368 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1215088006369 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1215088006370 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 1215088006371 TM-ABC transporter signature motif; other site 1215088006372 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1215088006373 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1215088006374 DNA binding site [nucleotide binding] 1215088006375 domain linker motif; other site 1215088006376 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1215088006377 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1215088006378 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 1215088006379 substrate binding site [chemical binding]; other site 1215088006380 dimer interface [polypeptide binding]; other site 1215088006381 ATP binding site [chemical binding]; other site 1215088006382 D-ribose pyranase; Provisional; Region: PRK11797 1215088006383 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 1215088006384 active site 1215088006385 tetramer interface [polypeptide binding]; other site 1215088006386 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1215088006387 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 1215088006388 DNA-binding site [nucleotide binding]; DNA binding site 1215088006389 RNA-binding motif; other site 1215088006390 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1215088006391 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 1215088006392 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1215088006393 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 1215088006394 active site 1215088006395 dimer interface [polypeptide binding]; other site 1215088006396 motif 1; other site 1215088006397 motif 2; other site 1215088006398 motif 3; other site 1215088006399 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 1215088006400 anticodon binding site; other site 1215088006401 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1215088006402 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1215088006403 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1215088006404 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1215088006405 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1215088006406 23S rRNA binding site [nucleotide binding]; other site 1215088006407 L21 binding site [polypeptide binding]; other site 1215088006408 L13 binding site [polypeptide binding]; other site 1215088006409 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1215088006410 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1215088006411 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 1215088006412 dimer interface [polypeptide binding]; other site 1215088006413 motif 1; other site 1215088006414 active site 1215088006415 motif 2; other site 1215088006416 motif 3; other site 1215088006417 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1215088006418 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 1215088006419 putative tRNA-binding site [nucleotide binding]; other site 1215088006420 B3/4 domain; Region: B3_4; pfam03483 1215088006421 tRNA synthetase B5 domain; Region: B5; smart00874 1215088006422 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 1215088006423 dimer interface [polypeptide binding]; other site 1215088006424 motif 1; other site 1215088006425 motif 3; other site 1215088006426 motif 2; other site 1215088006427 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1215088006428 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 1215088006429 IHF dimer interface [polypeptide binding]; other site 1215088006430 IHF - DNA interface [nucleotide binding]; other site 1215088006431 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1215088006432 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1215088006433 DNA binding residues [nucleotide binding] 1215088006434 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 1215088006435 active site 1215088006436 DNA binding site [nucleotide binding] 1215088006437 Int/Topo IB signature motif; other site 1215088006438 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 1215088006439 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 1215088006440 active site 1215088006441 metal binding site [ion binding]; metal-binding site 1215088006442 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 1215088006443 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1215088006444 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1215088006445 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1215088006446 cofactor binding site; other site 1215088006447 DNA binding site [nucleotide binding] 1215088006448 substrate interaction site [chemical binding]; other site 1215088006449 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1215088006450 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 1215088006451 HNH endonuclease; Region: HNH_3; pfam13392 1215088006452 AP2 domain; Region: AP2; pfam00847 1215088006453 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1215088006454 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 1215088006455 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1215088006456 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 1215088006457 non-specific DNA binding site [nucleotide binding]; other site 1215088006458 salt bridge; other site 1215088006459 sequence-specific DNA binding site [nucleotide binding]; other site 1215088006460 Predicted transcriptional regulator [Transcription]; Region: COG2932 1215088006461 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 1215088006462 Catalytic site [active] 1215088006463 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 1215088006464 non-specific DNA binding site [nucleotide binding]; other site 1215088006465 salt bridge; other site 1215088006466 sequence-specific DNA binding site [nucleotide binding]; other site 1215088006467 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 1215088006468 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1215088006469 replicative DNA helicase; Region: DnaB; TIGR00665 1215088006470 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 1215088006471 Walker A motif; other site 1215088006472 ATP binding site [chemical binding]; other site 1215088006473 Walker B motif; other site 1215088006474 DNA binding loops [nucleotide binding] 1215088006475 Phage endonuclease I; Region: Phage_endo_I; cl11622 1215088006476 NinB protein; Region: NinB; pfam05772 1215088006477 HNH endonuclease; Region: HNH_3; pfam13392 1215088006478 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1215088006479 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 1215088006480 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 1215088006481 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 1215088006482 active site 1215088006483 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 1215088006484 large terminase protein; Provisional; Region: 17; PHA02533 1215088006485 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 1215088006486 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1215088006487 Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: AlaS; COG0013 1215088006488 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 1215088006489 KilA-N domain; Region: KilA-N; pfam04383 1215088006490 ORF11CD3 domain; Region: ORF11CD3; pfam10549 1215088006491 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1215088006492 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1215088006493 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 1215088006494 non-specific DNA binding site [nucleotide binding]; other site 1215088006495 salt bridge; other site 1215088006496 sequence-specific DNA binding site [nucleotide binding]; other site 1215088006497 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1215088006498 tape measure domain; Region: tape_meas_nterm; TIGR02675 1215088006499 Phage-related minor tail protein [Function unknown]; Region: COG5281 1215088006500 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 1215088006501 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 1215088006502 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 1215088006503 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1215088006504 catalytic residue [active] 1215088006505 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 1215088006506 Predicted transcriptional regulator [Transcription]; Region: COG2378 1215088006507 WYL domain; Region: WYL; pfam13280 1215088006508 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1215088006509 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1215088006510 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1215088006511 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1215088006512 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 1215088006513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 1215088006514 Flagellin N-methylase; Region: FliB; pfam03692 1215088006515 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1215088006516 G1 box; other site 1215088006517 GTP/Mg2+ binding site [chemical binding]; other site 1215088006518 G2 box; other site 1215088006519 Switch I region; other site 1215088006520 G3 box; other site 1215088006521 Switch II region; other site 1215088006522 G4 box; other site 1215088006523 G5 box; other site 1215088006524 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1215088006525 G3 box; other site 1215088006526 Switch II region; other site 1215088006527 G4 box; other site 1215088006528 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1215088006529 G1 box; other site 1215088006530 GTP/Mg2+ binding site [chemical binding]; other site 1215088006531 G2 box; other site 1215088006532 Switch I region; other site 1215088006533 G3 box; other site 1215088006534 Switch II region; other site 1215088006535 G4 box; other site 1215088006536 G5 box; other site 1215088006537 histidinol-phosphate aminotransferase; Provisional; Region: PRK04635 1215088006538 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1215088006539 Protein of unknown function DUF262; Region: DUF262; pfam03235 1215088006540 Protein of unknown function DUF262; Region: DUF262; pfam03235 1215088006541 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1215088006542 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1215088006543 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 1215088006544 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1215088006545 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1215088006546 ligand binding site [chemical binding]; other site 1215088006547 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1215088006548 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 1215088006549 ATP binding site [chemical binding]; other site 1215088006550 putative Mg++ binding site [ion binding]; other site 1215088006551 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 1215088006552 nucleotide binding region [chemical binding]; other site 1215088006553 ATP-binding site [chemical binding]; other site 1215088006554 AIPR protein; Region: AIPR; pfam10592 1215088006555 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 1215088006556 Z1 domain; Region: Z1; pfam10593 1215088006557 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1215088006558 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1215088006559 cofactor binding site; other site 1215088006560 DNA binding site [nucleotide binding] 1215088006561 substrate interaction site [chemical binding]; other site 1215088006562 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1215088006563 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 1215088006564 additional DNA contacts [nucleotide binding]; other site 1215088006565 mismatch recognition site; other site 1215088006566 active site 1215088006567 zinc binding site [ion binding]; other site 1215088006568 DNA intercalation site [nucleotide binding]; other site 1215088006569 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088006570 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1215088006571 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1215088006572 Zn2+ binding site [ion binding]; other site 1215088006573 Mg2+ binding site [ion binding]; other site 1215088006574 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1215088006575 GAF domain; Region: GAF; pfam01590 1215088006576 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088006577 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088006578 metal binding site [ion binding]; metal-binding site 1215088006579 active site 1215088006580 I-site; other site 1215088006581 glutaminase; Provisional; Region: PRK00971 1215088006582 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1215088006583 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1215088006584 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088006585 DNA-binding site [nucleotide binding]; DNA binding site 1215088006586 FCD domain; Region: FCD; pfam07729 1215088006587 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1215088006588 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1215088006589 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088006590 putative substrate translocation pore; other site 1215088006591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1215088006592 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1215088006593 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1215088006594 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1215088006595 dimer interface [polypeptide binding]; other site 1215088006596 NADP binding site [chemical binding]; other site 1215088006597 catalytic residues [active] 1215088006598 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 1215088006599 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 1215088006600 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1215088006601 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 1215088006602 homodimer interface [polypeptide binding]; other site 1215088006603 substrate-cofactor binding pocket; other site 1215088006604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088006605 catalytic residue [active] 1215088006606 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1215088006607 Protein of unknown function (DUF917); Region: DUF917; cl17829 1215088006608 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 1215088006609 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1215088006610 Walker A motif; other site 1215088006611 ATP binding site [chemical binding]; other site 1215088006612 Walker B motif; other site 1215088006613 arginine finger; other site 1215088006614 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088006615 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1215088006616 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1215088006617 conserved cys residue [active] 1215088006618 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088006619 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088006620 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1215088006621 Zn2+ binding site [ion binding]; other site 1215088006622 Mg2+ binding site [ion binding]; other site 1215088006623 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 1215088006624 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 1215088006625 potential frameshift: common BLAST hit: gi|339486978|ref|YP_004701506.1| LysR family transcriptional regulator 1215088006626 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1215088006627 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088006628 putative substrate translocation pore; other site 1215088006629 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1215088006630 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 1215088006631 putative C-terminal domain interface [polypeptide binding]; other site 1215088006632 putative GSH binding site (G-site) [chemical binding]; other site 1215088006633 putative dimer interface [polypeptide binding]; other site 1215088006634 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1215088006635 putative N-terminal domain interface [polypeptide binding]; other site 1215088006636 putative dimer interface [polypeptide binding]; other site 1215088006637 putative substrate binding pocket (H-site) [chemical binding]; other site 1215088006638 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088006639 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1215088006640 WYL domain; Region: WYL; pfam13280 1215088006641 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1215088006642 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088006643 putative substrate translocation pore; other site 1215088006644 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1215088006645 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 1215088006646 FMN binding site [chemical binding]; other site 1215088006647 active site 1215088006648 substrate binding site [chemical binding]; other site 1215088006649 catalytic residue [active] 1215088006650 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1215088006651 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1215088006652 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 1215088006653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088006654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088006655 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 1215088006656 dimerization interface [polypeptide binding]; other site 1215088006657 metabolite-proton symporter; Region: 2A0106; TIGR00883 1215088006658 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088006659 putative substrate translocation pore; other site 1215088006660 allantoate amidohydrolase; Reviewed; Region: PRK12893 1215088006661 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1215088006662 active site 1215088006663 metal binding site [ion binding]; metal-binding site 1215088006664 dimer interface [polypeptide binding]; other site 1215088006665 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1215088006666 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1215088006667 active site 1215088006668 Zn binding site [ion binding]; other site 1215088006669 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 1215088006670 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088006671 DNA-binding site [nucleotide binding]; DNA binding site 1215088006672 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 1215088006673 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088006674 homodimer interface [polypeptide binding]; other site 1215088006675 catalytic residue [active] 1215088006676 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1215088006677 Spore germination protein; Region: Spore_permease; cl17796 1215088006678 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1215088006679 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 1215088006680 S-adenosylmethionine binding site [chemical binding]; other site 1215088006681 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1215088006682 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1215088006683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088006684 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 1215088006685 dimerization interface [polypeptide binding]; other site 1215088006686 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1215088006687 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088006688 putative substrate translocation pore; other site 1215088006689 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088006690 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088006691 hypothetical protein; Provisional; Region: PRK12378 1215088006692 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088006693 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088006694 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 1215088006695 substrate binding pocket [chemical binding]; other site 1215088006696 dimerization interface [polypeptide binding]; other site 1215088006697 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 1215088006698 tyrosine decarboxylase; Region: PLN02880 1215088006699 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1215088006700 catalytic residue [active] 1215088006701 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088006702 metabolite-proton symporter; Region: 2A0106; TIGR00883 1215088006703 putative substrate translocation pore; other site 1215088006704 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1215088006705 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1215088006706 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1215088006707 dimer interface [polypeptide binding]; other site 1215088006708 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1215088006709 active site 1215088006710 Fe binding site [ion binding]; other site 1215088006711 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 1215088006712 S-adenosylmethionine binding site [chemical binding]; other site 1215088006713 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1215088006714 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1215088006715 Chromate transporter; Region: Chromate_transp; pfam02417 1215088006716 PAS domain S-box; Region: sensory_box; TIGR00229 1215088006717 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 1215088006718 putative active site [active] 1215088006719 heme pocket [chemical binding]; other site 1215088006720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088006721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088006722 metal binding site [ion binding]; metal-binding site 1215088006723 active site 1215088006724 I-site; other site 1215088006725 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1215088006726 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1215088006727 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1215088006728 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1215088006729 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088006730 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1215088006731 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1215088006732 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1215088006733 Walker A/P-loop; other site 1215088006734 ATP binding site [chemical binding]; other site 1215088006735 Q-loop/lid; other site 1215088006736 ABC transporter signature motif; other site 1215088006737 Walker B; other site 1215088006738 D-loop; other site 1215088006739 H-loop/switch region; other site 1215088006740 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 1215088006741 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_2; cd09821 1215088006742 putative heme binding site [chemical binding]; other site 1215088006743 putative substrate binding site [chemical binding]; other site 1215088006744 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 1215088006745 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_2; cd09821 1215088006746 putative heme binding site [chemical binding]; other site 1215088006747 putative substrate binding site [chemical binding]; other site 1215088006748 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 1215088006749 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 1215088006750 Isochorismatase family; Region: Isochorismatase; pfam00857 1215088006751 catalytic triad [active] 1215088006752 conserved cis-peptide bond; other site 1215088006753 Pirin-related protein [General function prediction only]; Region: COG1741 1215088006754 Pirin; Region: Pirin; pfam02678 1215088006755 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1215088006756 Family description; Region: UvrD_C_2; pfam13538 1215088006757 Leucine rich repeat; Region: LRR_8; pfam13855 1215088006758 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1215088006759 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1215088006760 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 1215088006761 dimer interface [polypeptide binding]; other site 1215088006762 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1215088006763 metal binding site [ion binding]; metal-binding site 1215088006764 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088006765 putative substrate translocation pore; other site 1215088006766 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1215088006767 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1215088006768 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 1215088006769 acyl-activating enzyme (AAE) consensus motif; other site 1215088006770 putative AMP binding site [chemical binding]; other site 1215088006771 putative active site [active] 1215088006772 putative CoA binding site [chemical binding]; other site 1215088006773 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 1215088006774 heme binding pocket [chemical binding]; other site 1215088006775 heme ligand [chemical binding]; other site 1215088006776 short chain dehydrogenase; Provisional; Region: PRK09072 1215088006777 classical (c) SDRs; Region: SDR_c; cd05233 1215088006778 NAD(P) binding site [chemical binding]; other site 1215088006779 active site 1215088006780 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 1215088006781 TPR motif; other site 1215088006782 binding surface 1215088006783 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1215088006784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088006785 active site 1215088006786 phosphorylation site [posttranslational modification] 1215088006787 intermolecular recognition site; other site 1215088006788 dimerization interface [polypeptide binding]; other site 1215088006789 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 1215088006790 DNA binding site [nucleotide binding] 1215088006791 sensor protein QseC; Provisional; Region: PRK10337 1215088006792 HAMP domain; Region: HAMP; pfam00672 1215088006793 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 1215088006794 dimer interface [polypeptide binding]; other site 1215088006795 phosphorylation site [posttranslational modification] 1215088006796 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 1215088006797 ATP binding site [chemical binding]; other site 1215088006798 Mg2+ binding site [ion binding]; other site 1215088006799 G-X-G motif; other site 1215088006800 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1215088006801 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 1215088006802 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088006803 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088006804 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 1215088006805 putative substrate binding pocket [chemical binding]; other site 1215088006806 dimerization interface [polypeptide binding]; other site 1215088006807 Paraquat-inducible protein A; Region: PqiA; pfam04403 1215088006808 Paraquat-inducible protein A; Region: PqiA; pfam04403 1215088006809 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1215088006810 mce related protein; Region: MCE; pfam02470 1215088006811 mce related protein; Region: MCE; pfam02470 1215088006812 mce related protein; Region: MCE; pfam02470 1215088006813 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1215088006814 hypothetical protein; Provisional; Region: PRK10649 1215088006815 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1215088006816 Sulfatase; Region: Sulfatase; pfam00884 1215088006817 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 1215088006818 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1215088006819 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088006820 Coenzyme A binding pocket [chemical binding]; other site 1215088006821 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1215088006822 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 1215088006823 active site 1215088006824 putative substrate binding pocket [chemical binding]; other site 1215088006825 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1215088006826 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088006827 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 1215088006828 DNA binding residues [nucleotide binding] 1215088006829 dimerization interface [polypeptide binding]; other site 1215088006830 putative aminotransferase; Provisional; Region: PRK12403 1215088006831 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 1215088006832 inhibitor-cofactor binding pocket; inhibition site 1215088006833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088006834 catalytic residue [active] 1215088006835 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1215088006836 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1215088006837 NAD(P) binding site [chemical binding]; other site 1215088006838 catalytic residues [active] 1215088006839 Cache domain; Region: Cache_1; pfam02743 1215088006840 GAF domain; Region: GAF_3; pfam13492 1215088006841 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1215088006842 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088006843 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1215088006844 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088006845 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1215088006846 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1215088006847 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1215088006848 Bacterial transcriptional regulator; Region: IclR; pfam01614 1215088006849 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1215088006850 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1215088006851 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1215088006852 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088006853 D-galactonate transporter; Region: 2A0114; TIGR00893 1215088006854 putative substrate translocation pore; other site 1215088006855 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1215088006856 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1215088006857 NIPSNAP; Region: NIPSNAP; pfam07978 1215088006858 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 1215088006859 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1215088006860 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 1215088006861 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1215088006862 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1215088006863 shikimate binding site; other site 1215088006864 NAD(P) binding site [chemical binding]; other site 1215088006865 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1215088006866 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1215088006867 Bacterial transcriptional regulator; Region: IclR; pfam01614 1215088006868 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1215088006869 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1215088006870 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088006871 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088006872 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1215088006873 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1215088006874 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1215088006875 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1215088006876 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 1215088006877 dimer interface [polypeptide binding]; other site 1215088006878 conserved gate region; other site 1215088006879 putative PBP binding loops; other site 1215088006880 ABC-ATPase subunit interface; other site 1215088006881 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1215088006882 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 1215088006883 dimer interface [polypeptide binding]; other site 1215088006884 conserved gate region; other site 1215088006885 putative PBP binding loops; other site 1215088006886 ABC-ATPase subunit interface; other site 1215088006887 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1215088006888 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088006889 Walker A/P-loop; other site 1215088006890 ATP binding site [chemical binding]; other site 1215088006891 Q-loop/lid; other site 1215088006892 ABC transporter signature motif; other site 1215088006893 Walker B; other site 1215088006894 D-loop; other site 1215088006895 H-loop/switch region; other site 1215088006896 TOBE domain; Region: TOBE_2; pfam08402 1215088006897 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1215088006898 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1215088006899 Bacterial transcriptional regulator; Region: IclR; pfam01614 1215088006900 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1215088006901 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1215088006902 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088006903 Walker A/P-loop; other site 1215088006904 ATP binding site [chemical binding]; other site 1215088006905 Q-loop/lid; other site 1215088006906 ABC transporter signature motif; other site 1215088006907 Walker B; other site 1215088006908 D-loop; other site 1215088006909 H-loop/switch region; other site 1215088006910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088006911 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088006912 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 1215088006913 putative substrate binding pocket [chemical binding]; other site 1215088006914 dimerization interface [polypeptide binding]; other site 1215088006915 hypothetical protein; Provisional; Region: PRK12569 1215088006916 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1215088006917 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1215088006918 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1215088006919 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1215088006920 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1215088006921 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1215088006922 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1215088006923 PAAR motif; Region: PAAR_motif; pfam05488 1215088006924 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1215088006925 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1215088006926 dimer interface [polypeptide binding]; other site 1215088006927 active site 1215088006928 catalytic residue [active] 1215088006929 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1215088006930 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 1215088006931 catalytic loop [active] 1215088006932 iron binding site [ion binding]; other site 1215088006933 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 1215088006934 FAD binding pocket [chemical binding]; other site 1215088006935 conserved FAD binding motif [chemical binding]; other site 1215088006936 phosphate binding motif [ion binding]; other site 1215088006937 beta-alpha-beta structure motif; other site 1215088006938 NAD binding pocket [chemical binding]; other site 1215088006939 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 1215088006940 active site 1215088006941 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 1215088006942 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088006943 DNA-binding site [nucleotide binding]; DNA binding site 1215088006944 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 1215088006945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088006946 homodimer interface [polypeptide binding]; other site 1215088006947 catalytic residue [active] 1215088006948 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 1215088006949 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 1215088006950 TPR motif; other site 1215088006951 binding surface 1215088006952 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 1215088006953 dimerization interface [polypeptide binding]; other site 1215088006954 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088006955 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088006956 dimer interface [polypeptide binding]; other site 1215088006957 putative CheW interface [polypeptide binding]; other site 1215088006958 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1215088006959 potassium uptake protein; Region: kup; TIGR00794 1215088006960 putative arabinose transporter; Provisional; Region: PRK03545 1215088006961 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088006962 putative substrate translocation pore; other site 1215088006963 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 1215088006964 Ligand Binding Site [chemical binding]; other site 1215088006965 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 1215088006966 Ligand Binding Site [chemical binding]; other site 1215088006967 phosphate ABC transporter, phosphate-binding protein; Region: 3a0107s03; TIGR00975 1215088006968 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1215088006969 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 1215088006970 dimer interface [polypeptide binding]; other site 1215088006971 conserved gate region; other site 1215088006972 putative PBP binding loops; other site 1215088006973 ABC-ATPase subunit interface; other site 1215088006974 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1215088006975 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 1215088006976 dimer interface [polypeptide binding]; other site 1215088006977 conserved gate region; other site 1215088006978 putative PBP binding loops; other site 1215088006979 ABC-ATPase subunit interface; other site 1215088006980 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14263 1215088006981 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1215088006982 Walker A/P-loop; other site 1215088006983 ATP binding site [chemical binding]; other site 1215088006984 Q-loop/lid; other site 1215088006985 ABC transporter signature motif; other site 1215088006986 Walker B; other site 1215088006987 D-loop; other site 1215088006988 H-loop/switch region; other site 1215088006989 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1215088006990 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1215088006991 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 1215088006992 non-specific DNA binding site [nucleotide binding]; other site 1215088006993 salt bridge; other site 1215088006994 sequence-specific DNA binding site [nucleotide binding]; other site 1215088006995 Cupin domain; Region: Cupin_2; pfam07883 1215088006996 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1215088006997 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1215088006998 Peptidase C26; Region: Peptidase_C26; pfam07722 1215088006999 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1215088007000 catalytic triad [active] 1215088007001 putative aminotransferase; Validated; Region: PRK07480 1215088007002 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 1215088007003 inhibitor-cofactor binding pocket; inhibition site 1215088007004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088007005 catalytic residue [active] 1215088007006 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1215088007007 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 1215088007008 non-specific DNA binding site [nucleotide binding]; other site 1215088007009 salt bridge; other site 1215088007010 sequence-specific DNA binding site [nucleotide binding]; other site 1215088007011 Cupin domain; Region: Cupin_2; pfam07883 1215088007012 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1215088007013 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1215088007014 NADP binding site [chemical binding]; other site 1215088007015 homodimer interface [polypeptide binding]; other site 1215088007016 active site 1215088007017 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1215088007018 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1215088007019 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 1215088007020 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1215088007021 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1215088007022 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 1215088007023 S-adenosylmethionine binding site [chemical binding]; other site 1215088007024 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1215088007025 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1215088007026 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1215088007027 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088007028 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1215088007029 NAD(P) binding site [chemical binding]; other site 1215088007030 active site 1215088007031 SnoaL-like domain; Region: SnoaL_2; pfam12680 1215088007032 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 1215088007033 PAS domain; Region: PAS_9; pfam13426 1215088007034 putative active site [active] 1215088007035 heme pocket [chemical binding]; other site 1215088007036 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1215088007037 DNA binding residues [nucleotide binding] 1215088007038 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1215088007039 Gram-negative porin; Region: Porin_4; pfam13609 1215088007040 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1215088007041 FIST N domain; Region: FIST; pfam08495 1215088007042 FIST C domain; Region: FIST_C; pfam10442 1215088007043 PAS fold; Region: PAS_4; pfam08448 1215088007044 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 1215088007045 putative active site [active] 1215088007046 heme pocket [chemical binding]; other site 1215088007047 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088007048 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 1215088007049 dimer interface [polypeptide binding]; other site 1215088007050 phosphorylation site [posttranslational modification] 1215088007051 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 1215088007052 ATP binding site [chemical binding]; other site 1215088007053 Mg2+ binding site [ion binding]; other site 1215088007054 G-X-G motif; other site 1215088007055 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1215088007056 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088007057 active site 1215088007058 phosphorylation site [posttranslational modification] 1215088007059 intermolecular recognition site; other site 1215088007060 dimerization interface [polypeptide binding]; other site 1215088007061 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088007062 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088007063 active site 1215088007064 phosphorylation site [posttranslational modification] 1215088007065 intermolecular recognition site; other site 1215088007066 dimerization interface [polypeptide binding]; other site 1215088007067 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 1215088007068 DNA binding residues [nucleotide binding] 1215088007069 dimerization interface [polypeptide binding]; other site 1215088007070 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 1215088007071 active site residue [active] 1215088007072 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 1215088007073 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1215088007074 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1215088007075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088007076 Walker A/P-loop; other site 1215088007077 ATP binding site [chemical binding]; other site 1215088007078 Q-loop/lid; other site 1215088007079 ABC transporter signature motif; other site 1215088007080 Walker B; other site 1215088007081 D-loop; other site 1215088007082 H-loop/switch region; other site 1215088007083 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1215088007084 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1215088007085 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1215088007086 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1215088007087 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1215088007088 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 1215088007089 ligand binding site [chemical binding]; other site 1215088007090 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1215088007091 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 1215088007092 dimerization interface [polypeptide binding]; other site 1215088007093 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1215088007094 Histidine kinase; Region: HisKA_3; pfam07730 1215088007095 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 1215088007096 ATP binding site [chemical binding]; other site 1215088007097 Mg2+ binding site [ion binding]; other site 1215088007098 G-X-G motif; other site 1215088007099 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088007100 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088007101 active site 1215088007102 phosphorylation site [posttranslational modification] 1215088007103 intermolecular recognition site; other site 1215088007104 dimerization interface [polypeptide binding]; other site 1215088007105 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 1215088007106 DNA binding residues [nucleotide binding] 1215088007107 dimerization interface [polypeptide binding]; other site 1215088007108 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1215088007109 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1215088007110 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1215088007111 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1215088007112 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1215088007113 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1215088007114 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1215088007115 dimer interface [polypeptide binding]; other site 1215088007116 Trp docking motif [polypeptide binding]; other site 1215088007117 active site 1215088007118 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1215088007119 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 1215088007120 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088007121 substrate binding pocket [chemical binding]; other site 1215088007122 membrane-bound complex binding site; other site 1215088007123 hinge residues; other site 1215088007124 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1215088007125 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1215088007126 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1215088007127 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1215088007128 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1215088007129 dimer interface [polypeptide binding]; other site 1215088007130 Trp docking motif [polypeptide binding]; other site 1215088007131 active site 1215088007132 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1215088007133 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1215088007134 NAD(P) binding site [chemical binding]; other site 1215088007135 catalytic residues [active] 1215088007136 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 1215088007137 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1215088007138 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 1215088007139 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1215088007140 putative active site [active] 1215088007141 metal binding site [ion binding]; metal-binding site 1215088007142 PAS domain S-box; Region: sensory_box; TIGR00229 1215088007143 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1215088007144 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088007145 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 1215088007146 dimer interface [polypeptide binding]; other site 1215088007147 phosphorylation site [posttranslational modification] 1215088007148 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 1215088007149 ATP binding site [chemical binding]; other site 1215088007150 Mg2+ binding site [ion binding]; other site 1215088007151 G-X-G motif; other site 1215088007152 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1215088007153 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088007154 active site 1215088007155 phosphorylation site [posttranslational modification] 1215088007156 intermolecular recognition site; other site 1215088007157 dimerization interface [polypeptide binding]; other site 1215088007158 putative transporter; Provisional; Region: PRK11660 1215088007159 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1215088007160 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1215088007161 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 1215088007162 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 1215088007163 putative catalytic site [active] 1215088007164 putative phosphate binding site [ion binding]; other site 1215088007165 active site 1215088007166 metal binding site A [ion binding]; metal-binding site 1215088007167 DNA binding site [nucleotide binding] 1215088007168 putative AP binding site [nucleotide binding]; other site 1215088007169 putative metal binding site B [ion binding]; other site 1215088007170 mechanosensitive channel MscS; Provisional; Region: PRK10334 1215088007171 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1215088007172 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 1215088007173 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1215088007174 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1215088007175 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1215088007176 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1215088007177 NAD binding site [chemical binding]; other site 1215088007178 catalytic Zn binding site [ion binding]; other site 1215088007179 structural Zn binding site [ion binding]; other site 1215088007180 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 1215088007181 Cupin; Region: Cupin_6; pfam12852 1215088007182 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088007183 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088007184 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088007185 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1215088007186 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 1215088007187 GSH binding site [chemical binding]; other site 1215088007188 catalytic residues [active] 1215088007189 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1215088007190 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1215088007191 conserved cys residue [active] 1215088007192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088007193 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1215088007194 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1215088007195 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1215088007196 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1215088007197 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1215088007198 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 1215088007199 active site 1215088007200 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1215088007201 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088007202 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007203 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 1215088007204 dimerization interface [polypeptide binding]; other site 1215088007205 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 1215088007206 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1215088007207 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 1215088007208 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1215088007209 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1215088007210 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1215088007211 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1215088007212 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1215088007213 arsenical-resistance protein; Region: acr3; TIGR00832 1215088007214 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 1215088007215 dimerization interface [polypeptide binding]; other site 1215088007216 putative DNA binding site [nucleotide binding]; other site 1215088007217 putative Zn2+ binding site [ion binding]; other site 1215088007218 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1215088007219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007220 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 1215088007221 putative dimerization interface [polypeptide binding]; other site 1215088007222 tricarballylate dehydrogenase; Validated; Region: PRK08274 1215088007223 tricarballylate utilization protein B; Provisional; Region: PRK15033 1215088007224 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088007225 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007226 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 1215088007227 putative dimerization interface [polypeptide binding]; other site 1215088007228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1215088007229 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1215088007230 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1215088007231 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 1215088007232 Citrate transporter; Region: CitMHS; pfam03600 1215088007233 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088007234 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1215088007235 Cache domain; Region: Cache_1; pfam02743 1215088007236 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088007237 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088007238 metal binding site [ion binding]; metal-binding site 1215088007239 active site 1215088007240 I-site; other site 1215088007241 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 1215088007242 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1215088007243 putative NAD(P) binding site [chemical binding]; other site 1215088007244 active site 1215088007245 putative substrate binding site [chemical binding]; other site 1215088007246 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1215088007247 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1215088007248 DNA binding residues [nucleotide binding] 1215088007249 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1215088007250 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 1215088007251 DNA binding residues [nucleotide binding] 1215088007252 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1215088007253 FecR protein; Region: FecR; pfam04773 1215088007254 Secretin and TonB N terminus short domain; Region: STN; smart00965 1215088007255 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1215088007256 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 1215088007257 N-terminal plug; other site 1215088007258 ligand-binding site [chemical binding]; other site 1215088007259 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088007260 Coenzyme A binding pocket [chemical binding]; other site 1215088007261 2-isopropylmalate synthase; Validated; Region: PRK03739 1215088007262 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1215088007263 active site 1215088007264 catalytic residues [active] 1215088007265 metal binding site [ion binding]; metal-binding site 1215088007266 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1215088007267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088007268 NAD(P) binding site [chemical binding]; other site 1215088007269 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1215088007270 active site 1215088007271 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1215088007272 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1215088007273 conserved cys residue [active] 1215088007274 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 1215088007275 active site residue [active] 1215088007276 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1215088007277 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1215088007278 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1215088007279 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1215088007280 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088007281 Coenzyme A binding pocket [chemical binding]; other site 1215088007282 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1215088007283 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1215088007284 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007285 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 1215088007286 substrate binding pocket [chemical binding]; other site 1215088007287 dimerization interface [polypeptide binding]; other site 1215088007288 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 1215088007289 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1215088007290 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1215088007291 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1215088007292 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 1215088007293 active site 1215088007294 metal binding site [ion binding]; metal-binding site 1215088007295 (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 1215088007296 active site 1215088007297 catalytic site [active] 1215088007298 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1215088007299 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1215088007300 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1215088007301 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1215088007302 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1215088007303 shikimate binding site; other site 1215088007304 NAD(P) binding site [chemical binding]; other site 1215088007305 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1215088007306 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 1215088007307 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1215088007308 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1215088007309 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1215088007310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1215088007311 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1215088007312 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1215088007313 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1215088007314 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088007315 Coenzyme A binding pocket [chemical binding]; other site 1215088007316 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088007317 putative substrate translocation pore; other site 1215088007318 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1215088007319 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1215088007320 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 1215088007321 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088007322 DNA-binding site [nucleotide binding]; DNA binding site 1215088007323 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 1215088007324 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088007325 homodimer interface [polypeptide binding]; other site 1215088007326 catalytic residue [active] 1215088007327 CHASE4 domain; Region: CHASE4; pfam05228 1215088007328 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 1215088007329 PAS domain; Region: PAS_9; pfam13426 1215088007330 putative active site [active] 1215088007331 heme pocket [chemical binding]; other site 1215088007332 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088007333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088007334 metal binding site [ion binding]; metal-binding site 1215088007335 active site 1215088007336 I-site; other site 1215088007337 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 1215088007338 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088007339 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007340 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 1215088007341 putative substrate binding pocket [chemical binding]; other site 1215088007342 dimerization interface [polypeptide binding]; other site 1215088007343 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1215088007344 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1215088007345 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 1215088007346 dimer interface [polypeptide binding]; other site 1215088007347 conserved gate region; other site 1215088007348 putative PBP binding loops; other site 1215088007349 ABC-ATPase subunit interface; other site 1215088007350 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1215088007351 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1215088007352 Walker A/P-loop; other site 1215088007353 ATP binding site [chemical binding]; other site 1215088007354 Q-loop/lid; other site 1215088007355 ABC transporter signature motif; other site 1215088007356 Walker B; other site 1215088007357 D-loop; other site 1215088007358 H-loop/switch region; other site 1215088007359 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1215088007360 active sites [active] 1215088007361 tetramer interface [polypeptide binding]; other site 1215088007362 short chain dehydrogenase; Provisional; Region: PRK06139 1215088007363 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1215088007364 putative NAD(P) binding site [chemical binding]; other site 1215088007365 active site 1215088007366 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1215088007367 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1215088007368 MgtC family; Region: MgtC; pfam02308 1215088007369 Predicted membrane protein [Function unknown]; Region: COG3174 1215088007370 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 1215088007371 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1215088007372 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 1215088007373 ligand binding site [chemical binding]; other site 1215088007374 flexible hinge region; other site 1215088007375 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 1215088007376 putative switch regulator; other site 1215088007377 non-specific DNA interactions [nucleotide binding]; other site 1215088007378 DNA binding site [nucleotide binding] 1215088007379 sequence specific DNA binding site [nucleotide binding]; other site 1215088007380 putative cAMP binding site [chemical binding]; other site 1215088007381 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 1215088007382 Ligand Binding Site [chemical binding]; other site 1215088007383 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 1215088007384 Ligand Binding Site [chemical binding]; other site 1215088007385 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1215088007386 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088007387 Coenzyme A binding pocket [chemical binding]; other site 1215088007388 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 1215088007389 Ligand Binding Site [chemical binding]; other site 1215088007390 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1215088007391 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1215088007392 Beta-Casp domain; Region: Beta-Casp; smart01027 1215088007393 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1215088007394 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1215088007395 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 1215088007396 ligand binding site [chemical binding]; other site 1215088007397 flexible hinge region; other site 1215088007398 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 1215088007399 putative switch regulator; other site 1215088007400 non-specific DNA interactions [nucleotide binding]; other site 1215088007401 DNA binding site [nucleotide binding] 1215088007402 sequence specific DNA binding site [nucleotide binding]; other site 1215088007403 putative cAMP binding site [chemical binding]; other site 1215088007404 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 1215088007405 beta-alpha-beta structure motif; other site 1215088007406 NAD binding pocket [chemical binding]; other site 1215088007407 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1215088007408 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1215088007409 putative dimer interface [polypeptide binding]; other site 1215088007410 Ion channel; Region: Ion_trans_2; pfam07885 1215088007411 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1215088007412 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1215088007413 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1215088007414 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 1215088007415 dimer interface [polypeptide binding]; other site 1215088007416 active site 1215088007417 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 1215088007418 active site 1215088007419 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1215088007420 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 1215088007421 dimer interface [polypeptide binding]; other site 1215088007422 active site 1215088007423 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 1215088007424 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 1215088007425 active site 1215088007426 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 1215088007427 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 1215088007428 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1215088007429 catalytic residue [active] 1215088007430 Predicted dehydrogenase [General function prediction only]; Region: COG5322 1215088007431 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1215088007432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088007433 NAD(P) binding site [chemical binding]; other site 1215088007434 active site 1215088007435 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1215088007436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088007437 NAD(P) binding site [chemical binding]; other site 1215088007438 active site 1215088007439 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1215088007440 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1215088007441 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1215088007442 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators; Region: HTH_MerR2; cd04769 1215088007443 DNA binding residues [nucleotide binding] 1215088007444 putative dimer interface [polypeptide binding]; other site 1215088007445 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1215088007446 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1215088007447 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088007448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007449 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 1215088007450 putative substrate binding pocket [chemical binding]; other site 1215088007451 putative dimerization interface [polypeptide binding]; other site 1215088007452 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1215088007453 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1215088007454 putative NAD(P) binding site [chemical binding]; other site 1215088007455 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 1215088007456 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088007457 DNA-binding site [nucleotide binding]; DNA binding site 1215088007458 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 1215088007459 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1215088007460 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1215088007461 DNA repair helicase (rad3); Region: rad3; TIGR00604 1215088007462 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 1215088007463 DEAD_2; Region: DEAD_2; pfam06733 1215088007464 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1215088007465 NnrS protein; Region: NnrS; pfam05940 1215088007466 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1215088007467 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 1215088007468 active site 1215088007469 DNA binding site [nucleotide binding] 1215088007470 Int/Topo IB signature motif; other site 1215088007471 UreD urease accessory protein; Region: UreD; cl00530 1215088007472 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 1215088007473 alpha-gamma subunit interface [polypeptide binding]; other site 1215088007474 beta-gamma subunit interface [polypeptide binding]; other site 1215088007475 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 1215088007476 gamma-beta subunit interface [polypeptide binding]; other site 1215088007477 alpha-beta subunit interface [polypeptide binding]; other site 1215088007478 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1215088007479 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 1215088007480 subunit interactions [polypeptide binding]; other site 1215088007481 active site 1215088007482 flap region; other site 1215088007483 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 1215088007484 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 1215088007485 dimer interface [polypeptide binding]; other site 1215088007486 catalytic residues [active] 1215088007487 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1215088007488 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1215088007489 UreF; Region: UreF; pfam01730 1215088007490 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1215088007491 G1 box; other site 1215088007492 GTP/Mg2+ binding site [chemical binding]; other site 1215088007493 Switch I region; other site 1215088007494 Switch II region; other site 1215088007495 G4 box; other site 1215088007496 G5 box; other site 1215088007497 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1215088007498 Sulfatase; Region: Sulfatase; pfam00884 1215088007499 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1215088007500 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 1215088007501 putative active site [active] 1215088007502 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1215088007503 AAA domain; Region: AAA_28; pfam13521 1215088007504 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1215088007505 Cache domain; Region: Cache_2; pfam08269 1215088007506 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1215088007507 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 1215088007508 dimerization interface [polypeptide binding]; other site 1215088007509 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088007510 dimer interface [polypeptide binding]; other site 1215088007511 putative CheW interface [polypeptide binding]; other site 1215088007512 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1215088007513 Predicted membrane protein [Function unknown]; Region: COG3326 1215088007514 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1215088007515 LysR family transcriptional regulator; Provisional; Region: PRK14997 1215088007516 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007517 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 1215088007518 dimerization interface [polypeptide binding]; other site 1215088007519 azoreductase; Reviewed; Region: PRK00170 1215088007520 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1215088007521 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1215088007522 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1215088007523 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1215088007524 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 1215088007525 non-specific DNA binding site [nucleotide binding]; other site 1215088007526 salt bridge; other site 1215088007527 sequence-specific DNA binding site [nucleotide binding]; other site 1215088007528 Cupin domain; Region: Cupin_2; pfam07883 1215088007529 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1215088007530 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 1215088007531 putative active site [active] 1215088007532 putative FMN binding site [chemical binding]; other site 1215088007533 putative substrate binding site [chemical binding]; other site 1215088007534 putative catalytic residue [active] 1215088007535 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1215088007536 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1215088007537 aldolase II superfamily protein; Provisional; Region: PRK07044 1215088007538 intersubunit interface [polypeptide binding]; other site 1215088007539 active site 1215088007540 Zn2+ binding site [ion binding]; other site 1215088007541 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1215088007542 EamA-like transporter family; Region: EamA; pfam00892 1215088007543 Uncharacterized conserved protein [Function unknown]; Region: COG0393 1215088007544 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1215088007545 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1215088007546 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1215088007547 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1215088007548 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1215088007549 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088007550 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088007551 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 1215088007552 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1215088007553 putative NAD(P) binding site [chemical binding]; other site 1215088007554 active site 1215088007555 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1215088007556 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 1215088007557 putative catalytic residue [active] 1215088007558 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1215088007559 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 1215088007560 non-specific DNA binding site [nucleotide binding]; other site 1215088007561 salt bridge; other site 1215088007562 sequence-specific DNA binding site [nucleotide binding]; other site 1215088007563 Cupin domain; Region: Cupin_2; pfam07883 1215088007564 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088007565 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1215088007566 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 1215088007567 putative heme binding pocket [chemical binding]; other site 1215088007568 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1215088007569 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 1215088007570 DNA binding residues [nucleotide binding] 1215088007571 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1215088007572 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1215088007573 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1215088007574 conserved cys residue [active] 1215088007575 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088007576 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1215088007577 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 1215088007578 homotrimer interaction site [polypeptide binding]; other site 1215088007579 putative active site [active] 1215088007580 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 1215088007581 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1215088007582 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1215088007583 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088007584 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088007585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007586 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 1215088007587 dimerization interface [polypeptide binding]; other site 1215088007588 Predicted membrane protein [Function unknown]; Region: COG4125 1215088007589 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1215088007590 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1215088007591 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1215088007592 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 1215088007593 homodimer interface [polypeptide binding]; other site 1215088007594 substrate-cofactor binding pocket; other site 1215088007595 catalytic residue [active] 1215088007596 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1215088007597 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1215088007598 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1215088007599 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1215088007600 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1215088007601 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1215088007602 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 1215088007603 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 1215088007604 Walker A motif; other site 1215088007605 ATP binding site [chemical binding]; other site 1215088007606 Walker B motif; other site 1215088007607 arginine finger; other site 1215088007608 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 1215088007609 metal ion-dependent adhesion site (MIDAS); other site 1215088007610 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1215088007611 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 1215088007612 Walker A motif; other site 1215088007613 ATP binding site [chemical binding]; other site 1215088007614 Walker B motif; other site 1215088007615 arginine finger; other site 1215088007616 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088007617 putative S-transferase; Provisional; Region: PRK11752 1215088007618 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 1215088007619 C-terminal domain interface [polypeptide binding]; other site 1215088007620 GSH binding site (G-site) [chemical binding]; other site 1215088007621 dimer interface [polypeptide binding]; other site 1215088007622 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1215088007623 dimer interface [polypeptide binding]; other site 1215088007624 N-terminal domain interface [polypeptide binding]; other site 1215088007625 active site 1215088007626 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1215088007627 major facilitator superfamily transporter; Provisional; Region: PRK05122 1215088007628 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088007629 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1215088007630 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1215088007631 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088007632 Walker A/P-loop; other site 1215088007633 ATP binding site [chemical binding]; other site 1215088007634 ABC transporter signature motif; other site 1215088007635 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1215088007636 Walker B; other site 1215088007637 ABC transporter; Region: ABC_tran_2; pfam12848 1215088007638 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1215088007639 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 1215088007640 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1215088007641 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1215088007642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088007643 active site 1215088007644 phosphorylation site [posttranslational modification] 1215088007645 intermolecular recognition site; other site 1215088007646 dimerization interface [polypeptide binding]; other site 1215088007647 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1215088007648 Zn2+ binding site [ion binding]; other site 1215088007649 Mg2+ binding site [ion binding]; other site 1215088007650 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1215088007651 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 1215088007652 ATP binding site [chemical binding]; other site 1215088007653 Mg2+ binding site [ion binding]; other site 1215088007654 G-X-G motif; other site 1215088007655 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1215088007656 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1215088007657 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1215088007658 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1215088007659 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1215088007660 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1215088007661 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1215088007662 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1215088007663 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1215088007664 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 1215088007665 putative active site [active] 1215088007666 putative FMN binding site [chemical binding]; other site 1215088007667 putative substrate binding site [chemical binding]; other site 1215088007668 putative catalytic residue [active] 1215088007669 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1215088007670 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1215088007671 DNA binding residues [nucleotide binding] 1215088007672 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1215088007673 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1215088007674 NADP binding site [chemical binding]; other site 1215088007675 dimer interface [polypeptide binding]; other site 1215088007676 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 1215088007677 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1215088007678 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1215088007679 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088007680 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088007681 putative substrate translocation pore; other site 1215088007682 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1215088007683 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1215088007684 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 1215088007685 iron-sulfur cluster [ion binding]; other site 1215088007686 [2Fe-2S] cluster binding site [ion binding]; other site 1215088007687 Predicted membrane protein [Function unknown]; Region: COG2855 1215088007688 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1215088007689 SurA N-terminal domain; Region: SurA_N; pfam09312 1215088007690 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088007691 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088007692 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1215088007693 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1215088007694 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1215088007695 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1215088007696 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1215088007697 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1215088007698 Protein export membrane protein; Region: SecD_SecF; cl14618 1215088007699 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1215088007700 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1215088007701 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088007702 active site 1215088007703 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1215088007704 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1215088007705 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1215088007706 acyl-activating enzyme (AAE) consensus motif; other site 1215088007707 AMP binding site [chemical binding]; other site 1215088007708 active site 1215088007709 CoA binding site [chemical binding]; other site 1215088007710 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1215088007711 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1215088007712 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 1215088007713 DNA binding site [nucleotide binding] 1215088007714 active site 1215088007715 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1215088007716 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1215088007717 active site 1215088007718 catalytic triad [active] 1215088007719 dimer interface [polypeptide binding]; other site 1215088007720 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 1215088007721 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 1215088007722 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1215088007723 active site 1215088007724 metal binding site [ion binding]; metal-binding site 1215088007725 LysE type translocator; Region: LysE; cl00565 1215088007726 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1215088007727 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088007728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088007729 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1215088007730 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1215088007731 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1215088007732 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1215088007733 acyl-activating enzyme (AAE) consensus motif; other site 1215088007734 putative AMP binding site [chemical binding]; other site 1215088007735 putative active site [active] 1215088007736 putative CoA binding site [chemical binding]; other site 1215088007737 ecotin; Provisional; Region: PRK03719 1215088007738 secondary substrate binding site; other site 1215088007739 primary substrate binding site; other site 1215088007740 inhibition loop; other site 1215088007741 dimerization interface [polypeptide binding]; other site 1215088007742 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1215088007743 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1215088007744 NAD binding site [chemical binding]; other site 1215088007745 homotetramer interface [polypeptide binding]; other site 1215088007746 homodimer interface [polypeptide binding]; other site 1215088007747 substrate binding site [chemical binding]; other site 1215088007748 active site 1215088007749 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1215088007750 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1215088007751 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 1215088007752 Walker B motif; other site 1215088007753 arginine finger; other site 1215088007754 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088007755 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088007756 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1215088007757 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 1215088007758 dimer interface [polypeptide binding]; other site 1215088007759 conserved gate region; other site 1215088007760 putative PBP binding loops; other site 1215088007761 ABC-ATPase subunit interface; other site 1215088007762 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1215088007763 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 1215088007764 dimer interface [polypeptide binding]; other site 1215088007765 conserved gate region; other site 1215088007766 putative PBP binding loops; other site 1215088007767 ABC-ATPase subunit interface; other site 1215088007768 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1215088007769 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 1215088007770 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1215088007771 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1215088007772 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1215088007773 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1215088007774 substrate binding site [chemical binding]; other site 1215088007775 DNA-specific endonuclease I; Provisional; Region: PRK15137 1215088007776 Endonuclease I; Region: Endonuclease_1; pfam04231 1215088007777 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088007778 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1215088007779 putative substrate translocation pore; other site 1215088007780 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088007781 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007782 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 1215088007783 dimerization interface [polypeptide binding]; other site 1215088007784 acetolactate synthase; Reviewed; Region: PRK08322 1215088007785 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1215088007786 PYR/PP interface [polypeptide binding]; other site 1215088007787 dimer interface [polypeptide binding]; other site 1215088007788 TPP binding site [chemical binding]; other site 1215088007789 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1215088007790 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1215088007791 TPP-binding site [chemical binding]; other site 1215088007792 dimer interface [polypeptide binding]; other site 1215088007793 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1215088007794 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1215088007795 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 1215088007796 putative active site [active] 1215088007797 catalytic triad [active] 1215088007798 putative dimer interface [polypeptide binding]; other site 1215088007799 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088007800 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 1215088007801 DNA binding residues [nucleotide binding] 1215088007802 dimerization interface [polypeptide binding]; other site 1215088007803 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 1215088007804 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 1215088007805 TMP-binding site; other site 1215088007806 ATP-binding site [chemical binding]; other site 1215088007807 Predicted transporter component [General function prediction only]; Region: COG2391 1215088007808 Predicted transporter component [General function prediction only]; Region: COG2391 1215088007809 Sulphur transport; Region: Sulf_transp; pfam04143 1215088007810 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 1215088007811 catalytic triad [active] 1215088007812 dimer interface [polypeptide binding]; other site 1215088007813 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1215088007814 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1215088007815 active site 1215088007816 nucleophile elbow; other site 1215088007817 Protein of unknown function DUF72; Region: DUF72; pfam01904 1215088007818 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 1215088007819 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 1215088007820 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088007821 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007822 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 1215088007823 putative effector binding pocket; other site 1215088007824 dimerization interface [polypeptide binding]; other site 1215088007825 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1215088007826 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1215088007827 putative NAD(P) binding site [chemical binding]; other site 1215088007828 dimer interface [polypeptide binding]; other site 1215088007829 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 1215088007830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088007831 NAD(P) binding site [chemical binding]; other site 1215088007832 active site 1215088007833 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1215088007834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088007835 NAD(P) binding site [chemical binding]; other site 1215088007836 active site 1215088007837 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1215088007838 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1215088007839 conserved cys residue [active] 1215088007840 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088007841 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 1215088007842 nudix motif; other site 1215088007843 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 1215088007844 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1215088007845 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1215088007846 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088007847 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088007848 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088007849 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088007850 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 1215088007851 Isochorismatase family; Region: Isochorismatase; pfam00857 1215088007852 catalytic triad [active] 1215088007853 dimer interface [polypeptide binding]; other site 1215088007854 conserved cis-peptide bond; other site 1215088007855 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; cl10015 1215088007856 homotrimer interaction site [polypeptide binding]; other site 1215088007857 putative active site [active] 1215088007858 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088007859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007860 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1215088007861 dimerization interface [polypeptide binding]; other site 1215088007862 hypothetical protein; Provisional; Region: PRK09256 1215088007863 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1215088007864 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088007865 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1215088007866 putative substrate translocation pore; other site 1215088007867 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1215088007868 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1215088007869 Bacterial transcriptional regulator; Region: IclR; pfam01614 1215088007870 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1215088007871 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 1215088007872 substrate binding site [chemical binding]; other site 1215088007873 oxyanion hole (OAH) forming residues; other site 1215088007874 trimer interface [polypeptide binding]; other site 1215088007875 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1215088007876 CoA binding domain; Region: CoA_binding_2; pfam13380 1215088007877 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1215088007878 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1215088007879 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1215088007880 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1215088007881 Walker A/P-loop; other site 1215088007882 ATP binding site [chemical binding]; other site 1215088007883 Q-loop/lid; other site 1215088007884 ABC transporter signature motif; other site 1215088007885 Walker B; other site 1215088007886 D-loop; other site 1215088007887 H-loop/switch region; other site 1215088007888 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1215088007889 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 1215088007890 dimer interface [polypeptide binding]; other site 1215088007891 conserved gate region; other site 1215088007892 putative PBP binding loops; other site 1215088007893 ABC-ATPase subunit interface; other site 1215088007894 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1215088007895 NMT1-like family; Region: NMT1_2; pfam13379 1215088007896 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088007897 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 1215088007898 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1215088007899 substrate binding site [chemical binding]; other site 1215088007900 oxyanion hole (OAH) forming residues; other site 1215088007901 trimer interface [polypeptide binding]; other site 1215088007902 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1215088007903 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1215088007904 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1215088007905 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1215088007906 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088007907 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007908 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 1215088007909 dimerization interface [polypeptide binding]; other site 1215088007910 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1215088007911 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 1215088007912 dimer interface [polypeptide binding]; other site 1215088007913 active site 1215088007914 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088007915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007916 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 1215088007917 putative substrate binding pocket [chemical binding]; other site 1215088007918 putative dimerization interface [polypeptide binding]; other site 1215088007919 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1215088007920 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1215088007921 putative active site [active] 1215088007922 catalytic triad [active] 1215088007923 putative dimer interface [polypeptide binding]; other site 1215088007924 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1215088007925 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1215088007926 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1215088007927 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1215088007928 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1215088007929 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1215088007930 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 1215088007931 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1215088007932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088007933 NAD(P) binding site [chemical binding]; other site 1215088007934 active site 1215088007935 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1215088007936 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1215088007937 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1215088007938 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088007939 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088007940 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 1215088007941 putative dimerization interface [polypeptide binding]; other site 1215088007942 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1215088007943 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1215088007944 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 1215088007945 PaaX-like protein; Region: PaaX; pfam07848 1215088007946 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1215088007947 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1215088007948 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 1215088007949 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 1215088007950 putative trimer interface [polypeptide binding]; other site 1215088007951 putative metal binding site [ion binding]; other site 1215088007952 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 1215088007953 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 1215088007954 substrate binding site [chemical binding]; other site 1215088007955 oxyanion hole (OAH) forming residues; other site 1215088007956 trimer interface [polypeptide binding]; other site 1215088007957 enoyl-CoA hydratase; Provisional; Region: PRK08140 1215088007958 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 1215088007959 substrate binding site [chemical binding]; other site 1215088007960 oxyanion hole (OAH) forming residues; other site 1215088007961 trimer interface [polypeptide binding]; other site 1215088007962 3-hydroxyacyl-CoA dehydrogenase PaaC; Region: PaaC-3OHAcCoADH; TIGR02279 1215088007963 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1215088007964 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1215088007965 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1215088007966 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 1215088007967 CoenzymeA binding site [chemical binding]; other site 1215088007968 subunit interaction site [polypeptide binding]; other site 1215088007969 PHB binding site; other site 1215088007970 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1215088007971 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 1215088007972 dimer interface [polypeptide binding]; other site 1215088007973 active site 1215088007974 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1215088007975 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1215088007976 active site 1215088007977 AMP binding site [chemical binding]; other site 1215088007978 homodimer interface [polypeptide binding]; other site 1215088007979 acyl-activating enzyme (AAE) consensus motif; other site 1215088007980 CoA binding site [chemical binding]; other site 1215088007981 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1215088007982 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1215088007983 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1215088007984 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1215088007985 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1215088007986 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1215088007987 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1215088007988 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 1215088007989 FAD binding pocket [chemical binding]; other site 1215088007990 FAD binding motif [chemical binding]; other site 1215088007991 phosphate binding motif [ion binding]; other site 1215088007992 beta-alpha-beta structure motif; other site 1215088007993 NAD(p) ribose binding residues [chemical binding]; other site 1215088007994 NAD binding pocket [chemical binding]; other site 1215088007995 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1215088007996 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 1215088007997 catalytic loop [active] 1215088007998 iron binding site [ion binding]; other site 1215088007999 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1215088008000 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1215088008001 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1215088008002 Na binding site [ion binding]; other site 1215088008003 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088008004 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 1215088008005 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 1215088008006 substrate binding site [chemical binding]; other site 1215088008007 dimer interface [polypeptide binding]; other site 1215088008008 NADP binding site [chemical binding]; other site 1215088008009 catalytic residues [active] 1215088008010 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 1215088008011 substrate binding site [chemical binding]; other site 1215088008012 General stress protein [General function prediction only]; Region: GsiB; COG3729 1215088008013 CheB methylesterase; Region: CheB_methylest; pfam01339 1215088008014 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1215088008015 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1215088008016 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 1215088008017 S-adenosylmethionine binding site [chemical binding]; other site 1215088008018 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1215088008019 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 1215088008020 putative active site [active] 1215088008021 heme pocket [chemical binding]; other site 1215088008022 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 1215088008023 dimer interface [polypeptide binding]; other site 1215088008024 phosphorylation site [posttranslational modification] 1215088008025 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 1215088008026 ATP binding site [chemical binding]; other site 1215088008027 Mg2+ binding site [ion binding]; other site 1215088008028 G-X-G motif; other site 1215088008029 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1215088008030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088008031 active site 1215088008032 phosphorylation site [posttranslational modification] 1215088008033 intermolecular recognition site; other site 1215088008034 dimerization interface [polypeptide binding]; other site 1215088008035 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 1215088008036 nudix motif; other site 1215088008037 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1215088008038 active site 1215088008039 Low affinity iron permease; Region: Iron_permease; pfam04120 1215088008040 Protein of unknown function DUF72; Region: DUF72; pfam01904 1215088008041 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1215088008042 putative catalytic site [active] 1215088008043 putative metal binding site [ion binding]; other site 1215088008044 putative phosphate binding site [ion binding]; other site 1215088008045 cardiolipin synthase 2; Provisional; Region: PRK11263 1215088008046 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1215088008047 putative active site [active] 1215088008048 catalytic site [active] 1215088008049 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1215088008050 putative active site [active] 1215088008051 catalytic site [active] 1215088008052 Predicted integral membrane protein [Function unknown]; Region: COG0392 1215088008053 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 1215088008054 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1215088008055 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1215088008056 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1215088008057 active site 1215088008058 DNA binding site [nucleotide binding] 1215088008059 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 1215088008060 DNA binding site [nucleotide binding] 1215088008061 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 1215088008062 nucleotide binding site [chemical binding]; other site 1215088008063 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088008064 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1215088008065 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1215088008066 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 1215088008067 S-adenosylmethionine binding site [chemical binding]; other site 1215088008068 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 1215088008069 active site 1215088008070 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1215088008071 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 1215088008072 putative DNA binding site [nucleotide binding]; other site 1215088008073 putative homodimer interface [polypeptide binding]; other site 1215088008074 oxidoreductase; Provisional; Region: PRK06128 1215088008075 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1215088008076 NAD binding site [chemical binding]; other site 1215088008077 metal binding site [ion binding]; metal-binding site 1215088008078 active site 1215088008079 nucleosidase; Provisional; Region: PRK05634 1215088008080 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1215088008081 carboxylate-amine ligase; Provisional; Region: PRK13515 1215088008082 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1215088008083 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1215088008084 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 1215088008085 S-adenosylmethionine binding site [chemical binding]; other site 1215088008086 TLC ATP/ADP transporter; Region: TLC; cl03940 1215088008087 TLC ATP/ADP transporter; Region: TLC; cl03940 1215088008088 TLC ATP/ADP transporter; Region: TLC; cl03940 1215088008089 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 1215088008090 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1215088008091 active site 1215088008092 catalytic tetrad [active] 1215088008093 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1215088008094 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1215088008095 Sodium Bile acid symporter family; Region: SBF; pfam01758 1215088008096 beta-carotene hydroxylase; Region: PLN02601 1215088008097 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1215088008098 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088008099 Coenzyme A binding pocket [chemical binding]; other site 1215088008100 Cache domain; Region: Cache_1; pfam02743 1215088008101 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088008102 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088008103 metal binding site [ion binding]; metal-binding site 1215088008104 active site 1215088008105 I-site; other site 1215088008106 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1215088008107 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1215088008108 cytosine deaminase; Provisional; Region: PRK09230 1215088008109 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 1215088008110 active site 1215088008111 Putative transcription activator [Transcription]; Region: TenA; COG0819 1215088008112 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1215088008113 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1215088008114 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1215088008115 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 1215088008116 Cu(I) binding site [ion binding]; other site 1215088008117 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1215088008118 Cytochrome c; Region: Cytochrom_C; pfam00034 1215088008119 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088008120 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088008121 metal binding site [ion binding]; metal-binding site 1215088008122 active site 1215088008123 I-site; other site 1215088008124 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 1215088008125 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 1215088008126 DNA binding site [nucleotide binding] 1215088008127 dimer interface [polypeptide binding]; other site 1215088008128 active site 1215088008129 Int/Topo IB signature motif; other site 1215088008130 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1215088008131 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1215088008132 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1215088008133 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1215088008134 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1215088008135 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1215088008136 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088008137 putative substrate translocation pore; other site 1215088008138 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 1215088008139 [2Fe-2S] cluster binding site [ion binding]; other site 1215088008140 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1215088008141 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1215088008142 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088008143 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 1215088008144 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1215088008145 active site 1215088008146 catalytic tetrad [active] 1215088008147 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1215088008148 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1215088008149 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1215088008150 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088008151 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 1215088008152 putative effector binding pocket; other site 1215088008153 dimerization interface [polypeptide binding]; other site 1215088008154 TraX protein; Region: TraX; pfam05857 1215088008155 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1215088008156 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088008157 benzoate transporter; Region: benE; TIGR00843 1215088008158 Benzoate membrane transport protein; Region: BenE; pfam03594 1215088008159 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1215088008160 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 1215088008161 dimer interface [polypeptide binding]; other site 1215088008162 active site 1215088008163 benzoate transport; Region: 2A0115; TIGR00895 1215088008164 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088008165 putative substrate translocation pore; other site 1215088008166 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1215088008167 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1215088008168 putative NAD(P) binding site [chemical binding]; other site 1215088008169 active site 1215088008170 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1215088008171 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 1215088008172 catalytic loop [active] 1215088008173 iron binding site [ion binding]; other site 1215088008174 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 1215088008175 FAD binding pocket [chemical binding]; other site 1215088008176 FAD binding motif [chemical binding]; other site 1215088008177 phosphate binding motif [ion binding]; other site 1215088008178 beta-alpha-beta structure motif; other site 1215088008179 NAD binding pocket [chemical binding]; other site 1215088008180 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 1215088008181 inter-subunit interface; other site 1215088008182 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1215088008183 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 1215088008184 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 1215088008185 putative alpha subunit interface [polypeptide binding]; other site 1215088008186 putative active site [active] 1215088008187 putative substrate binding site [chemical binding]; other site 1215088008188 Fe binding site [ion binding]; other site 1215088008189 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088008190 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1215088008191 Helix-turn-helix domain; Region: HTH_18; pfam12833 1215088008192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088008193 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1215088008194 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 1215088008195 active site 1215088008196 universal stress protein UspE; Provisional; Region: PRK11175 1215088008197 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 1215088008198 Ligand Binding Site [chemical binding]; other site 1215088008199 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 1215088008200 Ligand Binding Site [chemical binding]; other site 1215088008201 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1215088008202 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 1215088008203 N-terminal plug; other site 1215088008204 ligand-binding site [chemical binding]; other site 1215088008205 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1215088008206 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1215088008207 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088008208 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088008209 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 1215088008210 putative dimerization interface [polypeptide binding]; other site 1215088008211 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 1215088008212 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1215088008213 NAD(P) binding site [chemical binding]; other site 1215088008214 catalytic residues [active] 1215088008215 AAA domain; Region: AAA_30; pfam13604 1215088008216 Helix-turn-helix domain; Region: HTH_18; pfam12833 1215088008217 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1215088008218 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1215088008219 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1215088008220 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1215088008221 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1215088008222 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088008223 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088008224 Predicted transcriptional regulator [Transcription]; Region: COG2944 1215088008225 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 1215088008226 non-specific DNA binding site [nucleotide binding]; other site 1215088008227 salt bridge; other site 1215088008228 sequence-specific DNA binding site [nucleotide binding]; other site 1215088008229 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1215088008230 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1215088008231 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1215088008232 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1215088008233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088008234 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1215088008235 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 1215088008236 dimerization interface [polypeptide binding]; other site 1215088008237 substrate binding pocket [chemical binding]; other site 1215088008238 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1215088008239 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1215088008240 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1215088008241 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 1215088008242 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1215088008243 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1215088008244 DXD motif; other site 1215088008245 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1215088008246 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 1215088008247 putative ADP-binding pocket [chemical binding]; other site 1215088008248 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1215088008249 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 1215088008250 active site 1215088008251 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 1215088008252 putative acyl transferase; Provisional; Region: PRK10191 1215088008253 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 1215088008254 trimer interface [polypeptide binding]; other site 1215088008255 active site 1215088008256 substrate binding site [chemical binding]; other site 1215088008257 CoA binding site [chemical binding]; other site 1215088008258 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1215088008259 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1215088008260 Probable Catalytic site; other site 1215088008261 metal-binding site 1215088008262 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1215088008263 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 1215088008264 trimer interface [polypeptide binding]; other site 1215088008265 active site 1215088008266 substrate binding site [chemical binding]; other site 1215088008267 CoA binding site [chemical binding]; other site 1215088008268 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1215088008269 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1215088008270 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1215088008271 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1215088008272 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1215088008273 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1215088008274 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1215088008275 NAD binding site [chemical binding]; other site 1215088008276 homodimer interface [polypeptide binding]; other site 1215088008277 active site 1215088008278 substrate binding site [chemical binding]; other site 1215088008279 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1215088008280 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 1215088008281 Chain length determinant protein; Region: Wzz; cl15801 1215088008282 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1215088008283 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1215088008284 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1215088008285 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 1215088008286 non-specific DNA binding site [nucleotide binding]; other site 1215088008287 salt bridge; other site 1215088008288 sequence-specific DNA binding site [nucleotide binding]; other site 1215088008289 Cupin domain; Region: Cupin_2; pfam07883 1215088008290 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1215088008291 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1215088008292 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1215088008293 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088008294 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088008295 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 1215088008296 putative dimerization interface [polypeptide binding]; other site 1215088008297 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 1215088008298 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1215088008299 active site 1215088008300 catalytic tetrad [active] 1215088008301 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1215088008302 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1215088008303 putative active site [active] 1215088008304 putative PHP Thumb interface [polypeptide binding]; other site 1215088008305 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 1215088008306 generic binding surface I; other site 1215088008307 generic binding surface II; other site 1215088008308 DNA Polymerase Y-family; Region: PolY_like; cd03468 1215088008309 active site 1215088008310 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1215088008311 DNA binding site [nucleotide binding] 1215088008312 Cell division inhibitor SulA; Region: SulA; cl01880 1215088008313 LexA repressor; Provisional; Region: PRK12423 1215088008314 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1215088008315 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 1215088008316 Catalytic site [active] 1215088008317 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1215088008318 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1215088008319 AAA domain; Region: AAA_21; pfam13304 1215088008320 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 1215088008321 active site 1215088008322 metal binding site [ion binding]; metal-binding site 1215088008323 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1215088008324 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088008325 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088008326 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1215088008327 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1215088008328 dimerization interface [polypeptide binding]; other site 1215088008329 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088008330 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088008331 dimer interface [polypeptide binding]; other site 1215088008332 putative CheW interface [polypeptide binding]; other site 1215088008333 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088008334 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1215088008335 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1215088008336 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1215088008337 Protein export membrane protein; Region: SecD_SecF; cl14618 1215088008338 Protein export membrane protein; Region: SecD_SecF; cl14618 1215088008339 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1215088008340 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088008341 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088008342 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088008343 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1215088008344 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1215088008345 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1215088008346 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1215088008347 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1215088008348 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1215088008349 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088008350 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088008351 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1215088008352 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088008353 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088008354 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1215088008355 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1215088008356 Protein of unknown function (DUF429); Region: DUF429; cl12046 1215088008357 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1215088008358 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1215088008359 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1215088008360 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1215088008361 active site 1215088008362 NAD binding site [chemical binding]; other site 1215088008363 metal binding site [ion binding]; metal-binding site 1215088008364 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1215088008365 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1215088008366 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1215088008367 tetrameric interface [polypeptide binding]; other site 1215088008368 NAD binding site [chemical binding]; other site 1215088008369 catalytic residues [active] 1215088008370 substrate binding site [chemical binding]; other site 1215088008371 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 1215088008372 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 1215088008373 inhibitor-cofactor binding pocket; inhibition site 1215088008374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088008375 catalytic residue [active] 1215088008376 aminotransferase; Provisional; Region: PRK06105 1215088008377 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 1215088008378 inhibitor-cofactor binding pocket; inhibition site 1215088008379 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088008380 catalytic residue [active] 1215088008381 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1215088008382 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1215088008383 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1215088008384 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1215088008385 Na binding site [ion binding]; other site 1215088008386 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1215088008387 acyl-CoA synthetase; Validated; Region: PRK08162 1215088008388 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1215088008389 acyl-activating enzyme (AAE) consensus motif; other site 1215088008390 putative active site [active] 1215088008391 AMP binding site [chemical binding]; other site 1215088008392 putative CoA binding site [chemical binding]; other site 1215088008393 short chain dehydrogenase; Provisional; Region: PRK06949 1215088008394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088008395 NAD(P) binding site [chemical binding]; other site 1215088008396 active site 1215088008397 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1215088008398 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1215088008399 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1215088008400 active site 1215088008401 Phosphotransferase enzyme family; Region: APH; pfam01636 1215088008402 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 1215088008403 putative active site [active] 1215088008404 putative substrate binding site [chemical binding]; other site 1215088008405 ATP binding site [chemical binding]; other site 1215088008406 Propionate catabolism activator; Region: PrpR_N; pfam06506 1215088008407 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 1215088008408 PAS domain; Region: PAS_9; pfam13426 1215088008409 putative active site [active] 1215088008410 heme pocket [chemical binding]; other site 1215088008411 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 1215088008412 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1215088008413 Walker A motif; other site 1215088008414 ATP binding site [chemical binding]; other site 1215088008415 Walker B motif; other site 1215088008416 arginine finger; other site 1215088008417 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088008418 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1215088008419 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 1215088008420 catalytic residues [active] 1215088008421 catalytic nucleophile [active] 1215088008422 Recombinase; Region: Recombinase; pfam07508 1215088008423 ParB-like nuclease domain; Region: ParB; smart00470 1215088008424 RepB plasmid partitioning protein; Region: RepB; pfam07506 1215088008425 RepB plasmid partitioning protein; Region: RepB; pfam07506 1215088008426 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 1215088008427 active site 1215088008428 DNA binding site [nucleotide binding] 1215088008429 Int/Topo IB signature motif; other site 1215088008430 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1215088008431 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1215088008432 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1215088008433 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1215088008434 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 1215088008435 motif II; other site 1215088008436 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088008437 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088008438 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 1215088008439 putative dimerization interface [polypeptide binding]; other site 1215088008440 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1215088008441 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1215088008442 amidase; Provisional; Region: PRK07486 1215088008443 Amidase; Region: Amidase; cl11426 1215088008444 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088008445 metabolite-proton symporter; Region: 2A0106; TIGR00883 1215088008446 putative substrate translocation pore; other site 1215088008447 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1215088008448 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1215088008449 metal binding site [ion binding]; metal-binding site 1215088008450 putative dimer interface [polypeptide binding]; other site 1215088008451 potential frameshift: common BLAST hit: gi|339487728|ref|YP_004702256.1| YD repeat-containing protein 1215088008452 PAAR motif; Region: PAAR_motif; pfam05488 1215088008453 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1215088008454 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1215088008455 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1215088008456 RHS Repeat; Region: RHS_repeat; cl11982 1215088008457 RHS Repeat; Region: RHS_repeat; pfam05593 1215088008458 RHS protein; Region: RHS; pfam03527 1215088008459 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088008460 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 1215088008461 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 1215088008462 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1215088008463 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1215088008464 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1215088008465 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1215088008466 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1215088008467 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1215088008468 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 1215088008469 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1215088008470 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1215088008471 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1215088008472 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1215088008473 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1215088008474 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1215088008475 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 1215088008476 Walker A motif; other site 1215088008477 ATP binding site [chemical binding]; other site 1215088008478 Walker B motif; other site 1215088008479 arginine finger; other site 1215088008480 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 1215088008481 Walker A motif; other site 1215088008482 ATP binding site [chemical binding]; other site 1215088008483 Walker B motif; other site 1215088008484 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1215088008485 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1215088008486 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1215088008487 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1215088008488 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 1215088008489 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1215088008490 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1215088008491 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1215088008492 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 1215088008493 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1215088008494 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1215088008495 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088008496 ligand binding site [chemical binding]; other site 1215088008497 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1215088008498 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1215088008499 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1215088008500 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1215088008501 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1215088008502 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1215088008503 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088008504 Walker A/P-loop; other site 1215088008505 ATP binding site [chemical binding]; other site 1215088008506 Q-loop/lid; other site 1215088008507 ABC transporter signature motif; other site 1215088008508 Walker B; other site 1215088008509 D-loop; other site 1215088008510 H-loop/switch region; other site 1215088008511 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1215088008512 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088008513 putative substrate translocation pore; other site 1215088008514 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1215088008515 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088008516 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088008517 Predicted permeases [General function prediction only]; Region: COG0679 1215088008518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088008519 putative substrate translocation pore; other site 1215088008520 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088008521 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1215088008522 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1215088008523 dimerization interface [polypeptide binding]; other site 1215088008524 ligand binding site [chemical binding]; other site 1215088008525 NADP binding site [chemical binding]; other site 1215088008526 catalytic site [active] 1215088008527 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088008528 D-galactonate transporter; Region: 2A0114; TIGR00893 1215088008529 putative substrate translocation pore; other site 1215088008530 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1215088008531 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 1215088008532 substrate binding site [chemical binding]; other site 1215088008533 ATP binding site [chemical binding]; other site 1215088008534 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1215088008535 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1215088008536 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1215088008537 DNA binding site [nucleotide binding] 1215088008538 domain linker motif; other site 1215088008539 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1215088008540 putative dimerization interface [polypeptide binding]; other site 1215088008541 putative ligand binding site [chemical binding]; other site 1215088008542 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1215088008543 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1215088008544 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1215088008545 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1215088008546 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1215088008547 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1215088008548 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1215088008549 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1215088008550 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1215088008551 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1215088008552 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1215088008553 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1215088008554 Yip1 domain; Region: Yip1; cl17815 1215088008555 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 1215088008556 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1215088008557 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1215088008558 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1215088008559 minor groove reading motif; other site 1215088008560 helix-hairpin-helix signature motif; other site 1215088008561 substrate binding pocket [chemical binding]; other site 1215088008562 active site 1215088008563 Pirin-related protein [General function prediction only]; Region: COG1741 1215088008564 Pirin; Region: Pirin; pfam02678 1215088008565 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1215088008566 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1215088008567 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1215088008568 putative acetyltransferase; Provisional; Region: PRK03624 1215088008569 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088008570 Coenzyme A binding pocket [chemical binding]; other site 1215088008571 Probable cobalt transporter subunit (CbtB); Region: CbtB; pfam09489 1215088008572 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 1215088008573 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1215088008574 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1215088008575 active site 1215088008576 SAM binding site [chemical binding]; other site 1215088008577 homodimer interface [polypeptide binding]; other site 1215088008578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 1215088008579 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 1215088008580 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088008581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088008582 active site 1215088008583 phosphorylation site [posttranslational modification] 1215088008584 intermolecular recognition site; other site 1215088008585 dimerization interface [polypeptide binding]; other site 1215088008586 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 1215088008587 DNA binding residues [nucleotide binding] 1215088008588 dimerization interface [polypeptide binding]; other site 1215088008589 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 1215088008590 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1215088008591 substrate binding pocket [chemical binding]; other site 1215088008592 membrane-bound complex binding site; other site 1215088008593 hinge residues; other site 1215088008594 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 1215088008595 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088008596 substrate binding pocket [chemical binding]; other site 1215088008597 membrane-bound complex binding site; other site 1215088008598 hinge residues; other site 1215088008599 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088008600 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 1215088008601 dimer interface [polypeptide binding]; other site 1215088008602 phosphorylation site [posttranslational modification] 1215088008603 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 1215088008604 ATP binding site [chemical binding]; other site 1215088008605 Mg2+ binding site [ion binding]; other site 1215088008606 G-X-G motif; other site 1215088008607 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088008608 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088008609 active site 1215088008610 phosphorylation site [posttranslational modification] 1215088008611 intermolecular recognition site; other site 1215088008612 dimerization interface [polypeptide binding]; other site 1215088008613 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 1215088008614 putative binding surface; other site 1215088008615 active site 1215088008616 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 1215088008617 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1215088008618 putative active site [active] 1215088008619 heme pocket [chemical binding]; other site 1215088008620 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 1215088008621 putative active site [active] 1215088008622 heme pocket [chemical binding]; other site 1215088008623 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088008624 dimer interface [polypeptide binding]; other site 1215088008625 putative CheW interface [polypeptide binding]; other site 1215088008626 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1215088008627 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1215088008628 DNA binding site [nucleotide binding] 1215088008629 domain linker motif; other site 1215088008630 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 1215088008631 putative ligand binding site [chemical binding]; other site 1215088008632 putative dimerization interface [polypeptide binding]; other site 1215088008633 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 1215088008634 AAA domain; Region: AAA_33; pfam13671 1215088008635 ATP-binding site [chemical binding]; other site 1215088008636 Gluconate-6-phosphate binding site [chemical binding]; other site 1215088008637 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1215088008638 GntP family permease; Region: GntP_permease; pfam02447 1215088008639 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1215088008640 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088008641 active site 1215088008642 phosphorylation site [posttranslational modification] 1215088008643 intermolecular recognition site; other site 1215088008644 dimerization interface [polypeptide binding]; other site 1215088008645 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 1215088008646 Walker A motif; other site 1215088008647 ATP binding site [chemical binding]; other site 1215088008648 Walker B motif; other site 1215088008649 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088008650 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088008651 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 1215088008652 dimer interface [polypeptide binding]; other site 1215088008653 phosphorylation site [posttranslational modification] 1215088008654 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 1215088008655 ATP binding site [chemical binding]; other site 1215088008656 Mg2+ binding site [ion binding]; other site 1215088008657 G-X-G motif; other site 1215088008658 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088008659 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 1215088008660 dimer interface [polypeptide binding]; other site 1215088008661 phosphorylation site [posttranslational modification] 1215088008662 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 1215088008663 ATP binding site [chemical binding]; other site 1215088008664 Mg2+ binding site [ion binding]; other site 1215088008665 G-X-G motif; other site 1215088008666 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1215088008667 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 1215088008668 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1215088008669 catalytic residue [active] 1215088008670 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1215088008671 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1215088008672 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1215088008673 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1215088008674 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1215088008675 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1215088008676 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088008677 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088008678 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1215088008679 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1215088008680 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 1215088008681 TPR repeat; Region: TPR_11; pfam13414 1215088008682 binding surface 1215088008683 TPR motif; other site 1215088008684 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 1215088008685 binding surface 1215088008686 TPR motif; other site 1215088008687 TPR repeat; Region: TPR_11; pfam13414 1215088008688 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 1215088008689 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088008690 dimer interface [polypeptide binding]; other site 1215088008691 phosphorylation site [posttranslational modification] 1215088008692 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 1215088008693 ATP binding site [chemical binding]; other site 1215088008694 Mg2+ binding site [ion binding]; other site 1215088008695 G-X-G motif; other site 1215088008696 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088008697 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088008698 active site 1215088008699 phosphorylation site [posttranslational modification] 1215088008700 intermolecular recognition site; other site 1215088008701 dimerization interface [polypeptide binding]; other site 1215088008702 PAS fold; Region: PAS_4; pfam08448 1215088008703 PAS domain S-box; Region: sensory_box; TIGR00229 1215088008704 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 1215088008705 putative active site [active] 1215088008706 heme pocket [chemical binding]; other site 1215088008707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088008708 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 1215088008709 ATP binding site [chemical binding]; other site 1215088008710 Mg2+ binding site [ion binding]; other site 1215088008711 G-X-G motif; other site 1215088008712 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088008713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088008714 active site 1215088008715 phosphorylation site [posttranslational modification] 1215088008716 intermolecular recognition site; other site 1215088008717 dimerization interface [polypeptide binding]; other site 1215088008718 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1215088008719 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1215088008720 potential catalytic triad [active] 1215088008721 conserved cys residue [active] 1215088008722 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1215088008723 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1215088008724 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1215088008725 dimer interface [polypeptide binding]; other site 1215088008726 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1215088008727 active site 1215088008728 Fe binding site [ion binding]; other site 1215088008729 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1215088008730 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 1215088008731 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1215088008732 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1215088008733 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1215088008734 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1215088008735 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 1215088008736 Transporter associated domain; Region: CorC_HlyC; smart01091 1215088008737 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1215088008738 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1215088008739 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088008740 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088008741 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088008742 Protein of unknown function (DUF563); Region: DUF563; pfam04577 1215088008743 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1215088008744 Leucine rich repeat; Region: LRR_8; pfam13855 1215088008745 Leucine rich repeat; Region: LRR_8; pfam13855 1215088008746 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1215088008747 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1215088008748 tetrameric interface [polypeptide binding]; other site 1215088008749 activator binding site; other site 1215088008750 NADP binding site [chemical binding]; other site 1215088008751 substrate binding site [chemical binding]; other site 1215088008752 catalytic residues [active] 1215088008753 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 1215088008754 putative dimer interface [polypeptide binding]; other site 1215088008755 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1215088008756 threonine dehydratase; Reviewed; Region: PRK12483 1215088008757 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 1215088008758 tetramer interface [polypeptide binding]; other site 1215088008759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088008760 catalytic residue [active] 1215088008761 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1215088008762 putative Ile/Val binding site [chemical binding]; other site 1215088008763 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1215088008764 putative Ile/Val binding site [chemical binding]; other site 1215088008765 Predicted membrane protein [Function unknown]; Region: COG4125 1215088008766 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1215088008767 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1215088008768 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 1215088008769 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1215088008770 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1215088008771 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 1215088008772 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 1215088008773 hypothetical protein; Provisional; Region: PRK09936 1215088008774 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088008775 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088008776 metal binding site [ion binding]; metal-binding site 1215088008777 active site 1215088008778 I-site; other site 1215088008779 sensor protein RstB; Provisional; Region: PRK10604 1215088008780 HAMP domain; Region: HAMP; pfam00672 1215088008781 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 1215088008782 dimer interface [polypeptide binding]; other site 1215088008783 phosphorylation site [posttranslational modification] 1215088008784 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 1215088008785 ATP binding site [chemical binding]; other site 1215088008786 Mg2+ binding site [ion binding]; other site 1215088008787 G-X-G motif; other site 1215088008788 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1215088008789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088008790 active site 1215088008791 phosphorylation site [posttranslational modification] 1215088008792 intermolecular recognition site; other site 1215088008793 dimerization interface [polypeptide binding]; other site 1215088008794 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 1215088008795 DNA binding site [nucleotide binding] 1215088008796 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1215088008797 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 1215088008798 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088008799 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1215088008800 Protein export membrane protein; Region: SecD_SecF; cl14618 1215088008801 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1215088008802 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1215088008803 GTP binding site; other site 1215088008804 acyl-CoA synthetase; Provisional; Region: PRK12583 1215088008805 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1215088008806 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1215088008807 acyl-activating enzyme (AAE) consensus motif; other site 1215088008808 putative AMP binding site [chemical binding]; other site 1215088008809 putative active site [active] 1215088008810 putative CoA binding site [chemical binding]; other site 1215088008811 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 1215088008812 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 1215088008813 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 1215088008814 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 1215088008815 FeS/SAM binding site; other site 1215088008816 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1215088008817 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 1215088008818 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 1215088008819 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 1215088008820 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 1215088008821 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1215088008822 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1215088008823 NAD(P) binding site [chemical binding]; other site 1215088008824 catalytic residues [active] 1215088008825 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1215088008826 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1215088008827 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1215088008828 active site 1215088008829 catalytic residues [active] 1215088008830 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1215088008831 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1215088008832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088008833 Walker A/P-loop; other site 1215088008834 ATP binding site [chemical binding]; other site 1215088008835 Q-loop/lid; other site 1215088008836 ABC transporter signature motif; other site 1215088008837 Walker B; other site 1215088008838 D-loop; other site 1215088008839 H-loop/switch region; other site 1215088008840 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1215088008841 GAF domain; Region: GAF; pfam01590 1215088008842 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 1215088008843 putative active site [active] 1215088008844 heme pocket [chemical binding]; other site 1215088008845 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 1215088008846 ATP binding site [chemical binding]; other site 1215088008847 Walker A motif; other site 1215088008848 Walker B motif; other site 1215088008849 arginine finger; other site 1215088008850 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088008851 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1215088008852 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1215088008853 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1215088008854 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1215088008855 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 1215088008856 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088008857 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 1215088008858 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 1215088008859 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; pfam10614 1215088008860 curli assembly protein CsgE; Provisional; Region: PRK10386 1215088008861 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1215088008862 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1215088008863 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1215088008864 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1215088008865 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1215088008866 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 1215088008867 TPR motif; other site 1215088008868 binding surface 1215088008869 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1215088008870 Secretin and TonB N terminus short domain; Region: STN; smart00965 1215088008871 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1215088008872 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1215088008873 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1215088008874 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1215088008875 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1215088008876 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 1215088008877 Walker A motif; other site 1215088008878 ATP binding site [chemical binding]; other site 1215088008879 Walker B motif; other site 1215088008880 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088008881 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088008882 active site 1215088008883 phosphorylation site [posttranslational modification] 1215088008884 intermolecular recognition site; other site 1215088008885 dimerization interface [polypeptide binding]; other site 1215088008886 SurA N-terminal domain; Region: SurA_N_3; cl07813 1215088008887 Cytochrome c; Region: Cytochrom_C; pfam00034 1215088008888 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1215088008889 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1215088008890 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1215088008891 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 1215088008892 Cu(I) binding site [ion binding]; other site 1215088008893 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1215088008894 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 1215088008895 Cu(I) binding site [ion binding]; other site 1215088008896 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1215088008897 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1215088008898 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088008899 malonate transporter, MadM subunit; Region: malonate_madM; TIGR00808 1215088008900 Malonate transporter MadL subunit; Region: MadL; cl04273 1215088008901 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1215088008902 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1215088008903 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 1215088008904 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1215088008905 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 1215088008906 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1215088008907 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 1215088008908 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 1215088008909 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1215088008910 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1215088008911 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 1215088008912 substrate binding site [chemical binding]; other site 1215088008913 oxyanion hole (OAH) forming residues; other site 1215088008914 trimer interface [polypeptide binding]; other site 1215088008915 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1215088008916 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1215088008917 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088008918 active site 1215088008919 transcriptional regulator; Provisional; Region: PRK10632 1215088008920 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088008921 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 1215088008922 putative effector binding pocket; other site 1215088008923 dimerization interface [polypeptide binding]; other site 1215088008924 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1215088008925 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1215088008926 Family of unknown function (DUF633); Region: DUF633; pfam04816 1215088008927 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 1215088008928 homotrimer interaction site [polypeptide binding]; other site 1215088008929 putative active site [active] 1215088008930 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1215088008931 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 1215088008932 Peptidase family U32; Region: Peptidase_U32; pfam01136 1215088008933 Collagenase; Region: DUF3656; pfam12392 1215088008934 amidase; Validated; Region: PRK06565 1215088008935 Amidase; Region: Amidase; cl11426 1215088008936 Amidase; Region: Amidase; cl11426 1215088008937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1215088008938 YheO-like PAS domain; Region: PAS_6; pfam08348 1215088008939 HTH domain; Region: HTH_22; pfam13309 1215088008940 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 1215088008941 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1215088008942 catalytic residue [active] 1215088008943 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1215088008944 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1215088008945 dimer interface [polypeptide binding]; other site 1215088008946 active site 1215088008947 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1215088008948 catalytic residues [active] 1215088008949 substrate binding site [chemical binding]; other site 1215088008950 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1215088008951 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1215088008952 NAD(P) binding pocket [chemical binding]; other site 1215088008953 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1215088008954 potential catalytic triad [active] 1215088008955 conserved cys residue [active] 1215088008956 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088008957 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088008958 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 1215088008959 substrate binding pocket [chemical binding]; other site 1215088008960 dimerization interface [polypeptide binding]; other site 1215088008961 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1215088008962 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1215088008963 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1215088008964 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1215088008965 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1215088008966 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088008967 malate:quinone oxidoreductase; Validated; Region: PRK05257 1215088008968 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1215088008969 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1215088008970 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 1215088008971 FeS/SAM binding site; other site 1215088008972 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1215088008973 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 1215088008974 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1215088008975 Lumazine binding domain; Region: Lum_binding; pfam00677 1215088008976 Lumazine binding domain; Region: Lum_binding; pfam00677 1215088008977 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 1215088008978 proline/glycine betaine transporter; Provisional; Region: PRK10642 1215088008979 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088008980 putative substrate translocation pore; other site 1215088008981 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 1215088008982 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 1215088008983 dimer interface [polypeptide binding]; other site 1215088008984 active site 1215088008985 Schiff base residues; other site 1215088008986 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 1215088008987 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 1215088008988 ATP binding site [chemical binding]; other site 1215088008989 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1215088008990 Spore germination protein; Region: Spore_permease; cl17796 1215088008991 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1215088008992 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1215088008993 carbon starvation induced protein; Validated; Region: PRK02963 1215088008994 substrate binding pocket [chemical binding]; other site 1215088008995 active site 1215088008996 iron coordination sites [ion binding]; other site 1215088008997 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 1215088008998 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088008999 DNA-binding site [nucleotide binding]; DNA binding site 1215088009000 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1215088009001 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1215088009002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088009003 active site 1215088009004 phosphorylation site [posttranslational modification] 1215088009005 intermolecular recognition site; other site 1215088009006 dimerization interface [polypeptide binding]; other site 1215088009007 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 1215088009008 DNA binding site [nucleotide binding] 1215088009009 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088009010 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 1215088009011 dimerization interface [polypeptide binding]; other site 1215088009012 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 1215088009013 dimer interface [polypeptide binding]; other site 1215088009014 phosphorylation site [posttranslational modification] 1215088009015 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 1215088009016 ATP binding site [chemical binding]; other site 1215088009017 Mg2+ binding site [ion binding]; other site 1215088009018 G-X-G motif; other site 1215088009019 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1215088009020 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1215088009021 active site 1215088009022 HIGH motif; other site 1215088009023 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1215088009024 KMSKS motif; other site 1215088009025 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1215088009026 tRNA binding surface [nucleotide binding]; other site 1215088009027 anticodon binding site; other site 1215088009028 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1215088009029 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1215088009030 active site 1215088009031 HIGH motif; other site 1215088009032 nucleotide binding site [chemical binding]; other site 1215088009033 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1215088009034 KMSKS motif; other site 1215088009035 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1215088009036 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 1215088009037 substrate binding site [chemical binding]; other site 1215088009038 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1215088009039 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1215088009040 putative active site [active] 1215088009041 putative metal binding site [ion binding]; other site 1215088009042 Penicillin amidase; Region: Penicil_amidase; pfam01804 1215088009043 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 1215088009044 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 1215088009045 active site 1215088009046 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 1215088009047 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 1215088009048 Mor transcription activator family; Region: Mor; cl02360 1215088009049 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 1215088009050 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 1215088009051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1215088009052 Family of unknown function (DUF490); Region: DUF490; pfam04357 1215088009053 Family of unknown function (DUF490); Region: DUF490; pfam04357 1215088009054 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1215088009055 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1215088009056 Surface antigen; Region: Bac_surface_Ag; pfam01103 1215088009057 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1215088009058 Coenzyme A binding pocket [chemical binding]; other site 1215088009059 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 1215088009060 putative catalytic site [active] 1215088009061 putative phosphate binding site [ion binding]; other site 1215088009062 active site 1215088009063 metal binding site A [ion binding]; metal-binding site 1215088009064 DNA binding site [nucleotide binding] 1215088009065 putative AP binding site [nucleotide binding]; other site 1215088009066 putative metal binding site B [ion binding]; other site 1215088009067 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088009068 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088009069 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1215088009070 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 1215088009071 substrate binding pocket [chemical binding]; other site 1215088009072 membrane-bound complex binding site; other site 1215088009073 hinge residues; other site 1215088009074 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 1215088009075 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1215088009076 active site 1215088009077 non-prolyl cis peptide bond; other site 1215088009078 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1215088009079 hypothetical protein; Provisional; Region: PRK11171 1215088009080 Cupin domain; Region: Cupin_2; pfam07883 1215088009081 Cupin domain; Region: Cupin_2; pfam07883 1215088009082 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1215088009083 putative lipid binding site [chemical binding]; other site 1215088009084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088009085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088009086 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 1215088009087 dimerization interface [polypeptide binding]; other site 1215088009088 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1215088009089 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1215088009090 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1215088009091 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 1215088009092 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1215088009093 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1215088009094 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1215088009095 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1215088009096 Cupin domain; Region: Cupin_2; cl17218 1215088009097 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1215088009098 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088009099 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1215088009100 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1215088009101 DNA binding residues [nucleotide binding] 1215088009102 putative dimer interface [polypeptide binding]; other site 1215088009103 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1215088009104 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1215088009105 active site 1215088009106 catalytic residues [active] 1215088009107 metal binding site [ion binding]; metal-binding site 1215088009108 MgtC family; Region: MgtC; pfam02308 1215088009109 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 1215088009110 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1215088009111 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1215088009112 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1215088009113 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 1215088009114 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088009115 DNA-binding site [nucleotide binding]; DNA binding site 1215088009116 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 1215088009117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088009118 homodimer interface [polypeptide binding]; other site 1215088009119 catalytic residue [active] 1215088009120 PAS fold; Region: PAS_4; pfam08448 1215088009121 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088009122 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 1215088009123 ATP binding site [chemical binding]; other site 1215088009124 Mg2+ binding site [ion binding]; other site 1215088009125 G-X-G motif; other site 1215088009126 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1215088009127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088009128 active site 1215088009129 phosphorylation site [posttranslational modification] 1215088009130 intermolecular recognition site; other site 1215088009131 dimerization interface [polypeptide binding]; other site 1215088009132 PAS fold; Region: PAS_4; pfam08448 1215088009133 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 1215088009134 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088009135 dimer interface [polypeptide binding]; other site 1215088009136 phosphorylation site [posttranslational modification] 1215088009137 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 1215088009138 ATP binding site [chemical binding]; other site 1215088009139 Mg2+ binding site [ion binding]; other site 1215088009140 G-X-G motif; other site 1215088009141 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1215088009142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088009143 active site 1215088009144 phosphorylation site [posttranslational modification] 1215088009145 intermolecular recognition site; other site 1215088009146 dimerization interface [polypeptide binding]; other site 1215088009147 short chain dehydrogenase; Provisional; Region: PRK06123 1215088009148 classical (c) SDRs; Region: SDR_c; cd05233 1215088009149 NAD(P) binding site [chemical binding]; other site 1215088009150 active site 1215088009151 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1215088009152 ApbE family; Region: ApbE; pfam02424 1215088009153 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1215088009154 SLBB domain; Region: SLBB; pfam10531 1215088009155 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 1215088009156 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1215088009157 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1215088009158 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088009159 putative substrate translocation pore; other site 1215088009160 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088009161 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1215088009162 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088009163 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088009164 MarR family; Region: MarR_2; cl17246 1215088009165 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1215088009166 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1215088009167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088009168 active site 1215088009169 phosphorylation site [posttranslational modification] 1215088009170 intermolecular recognition site; other site 1215088009171 dimerization interface [polypeptide binding]; other site 1215088009172 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 1215088009173 DNA binding residues [nucleotide binding] 1215088009174 dimerization interface [polypeptide binding]; other site 1215088009175 PAS domain S-box; Region: sensory_box; TIGR00229 1215088009176 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 1215088009177 putative active site [active] 1215088009178 heme pocket [chemical binding]; other site 1215088009179 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 1215088009180 dimer interface [polypeptide binding]; other site 1215088009181 phosphorylation site [posttranslational modification] 1215088009182 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 1215088009183 ATP binding site [chemical binding]; other site 1215088009184 G-X-G motif; other site 1215088009185 acyl-CoA synthetase; Validated; Region: PRK08162 1215088009186 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1215088009187 acyl-activating enzyme (AAE) consensus motif; other site 1215088009188 putative active site [active] 1215088009189 AMP binding site [chemical binding]; other site 1215088009190 putative CoA binding site [chemical binding]; other site 1215088009191 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1215088009192 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1215088009193 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088009194 active site 1215088009195 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1215088009196 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1215088009197 FecR protein; Region: FecR; pfam04773 1215088009198 Predicted permease [General function prediction only]; Region: COG2056 1215088009199 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1215088009200 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 1215088009201 dimerization interface [polypeptide binding]; other site 1215088009202 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088009203 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088009204 dimer interface [polypeptide binding]; other site 1215088009205 putative CheW interface [polypeptide binding]; other site 1215088009206 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1215088009207 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1215088009208 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 1215088009209 dimer interface [polypeptide binding]; other site 1215088009210 conserved gate region; other site 1215088009211 ABC-ATPase subunit interface; other site 1215088009212 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088009213 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088009214 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 1215088009215 putative dimerization interface [polypeptide binding]; other site 1215088009216 Membrane transport protein; Region: Mem_trans; cl09117 1215088009217 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1215088009218 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 1215088009219 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1215088009220 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 1215088009221 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1215088009222 conserved cys residue [active] 1215088009223 Helix-turn-helix domain; Region: HTH_18; pfam12833 1215088009224 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088009225 LysE type translocator; Region: LysE; cl00565 1215088009226 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1215088009227 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1215088009228 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088009229 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088009230 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 1215088009231 putative effector binding pocket; other site 1215088009232 dimerization interface [polypeptide binding]; other site 1215088009233 Cupin domain; Region: Cupin_2; cl17218 1215088009234 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1215088009235 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1215088009236 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1215088009237 Trp docking motif [polypeptide binding]; other site 1215088009238 putative active site [active] 1215088009239 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1215088009240 acetylornithine deacetylase; Provisional; Region: PRK07522 1215088009241 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1215088009242 metal binding site [ion binding]; metal-binding site 1215088009243 putative dimer interface [polypeptide binding]; other site 1215088009244 Uncharacterized conserved protein [Function unknown]; Region: COG3342 1215088009245 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1215088009246 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 1215088009247 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1215088009248 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 1215088009249 homotrimer interaction site [polypeptide binding]; other site 1215088009250 putative active site [active] 1215088009251 Secretin and TonB N terminus short domain; Region: STN; smart00965 1215088009252 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1215088009253 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 1215088009254 N-terminal plug; other site 1215088009255 ligand-binding site [chemical binding]; other site 1215088009256 fec operon regulator FecR; Reviewed; Region: PRK09774 1215088009257 FecR protein; Region: FecR; pfam04773 1215088009258 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1215088009259 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088009260 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1215088009261 DNA binding residues [nucleotide binding] 1215088009262 phosphoglucomutase; Validated; Region: PRK07564 1215088009263 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 1215088009264 active site 1215088009265 substrate binding site [chemical binding]; other site 1215088009266 metal binding site [ion binding]; metal-binding site 1215088009267 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 1215088009268 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 1215088009269 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1215088009270 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1215088009271 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1215088009272 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088009273 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088009274 metal binding site [ion binding]; metal-binding site 1215088009275 active site 1215088009276 I-site; other site 1215088009277 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 1215088009278 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1215088009279 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1215088009280 Protein export membrane protein; Region: SecD_SecF; cl14618 1215088009281 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1215088009282 Protein export membrane protein; Region: SecD_SecF; cl14618 1215088009283 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1215088009284 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 1215088009285 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088009286 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 1215088009287 dimer interface [polypeptide binding]; other site 1215088009288 catalytic triad [active] 1215088009289 peroxidatic and resolving cysteines [active] 1215088009290 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1215088009291 serine transporter; Region: stp; TIGR00814 1215088009292 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1215088009293 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 1215088009294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088009295 homodimer interface [polypeptide binding]; other site 1215088009296 catalytic residue [active] 1215088009297 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1215088009298 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1215088009299 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1215088009300 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 1215088009301 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 1215088009302 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088009303 substrate binding pocket [chemical binding]; other site 1215088009304 membrane-bound complex binding site; other site 1215088009305 hinge residues; other site 1215088009306 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088009307 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 1215088009308 dimer interface [polypeptide binding]; other site 1215088009309 conserved gate region; other site 1215088009310 putative PBP binding loops; other site 1215088009311 ABC-ATPase subunit interface; other site 1215088009312 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088009313 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 1215088009314 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 1215088009315 dimer interface [polypeptide binding]; other site 1215088009316 putative PBP binding loops; other site 1215088009317 ABC-ATPase subunit interface; other site 1215088009318 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088009319 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1215088009320 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1215088009321 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1215088009322 Walker A/P-loop; other site 1215088009323 ATP binding site [chemical binding]; other site 1215088009324 Q-loop/lid; other site 1215088009325 ABC transporter signature motif; other site 1215088009326 Walker B; other site 1215088009327 D-loop; other site 1215088009328 H-loop/switch region; other site 1215088009329 Peptidase C26; Region: Peptidase_C26; pfam07722 1215088009330 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1215088009331 catalytic triad [active] 1215088009332 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1215088009333 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1215088009334 putative active site [active] 1215088009335 catalytic residue [active] 1215088009336 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088009337 D-galactonate transporter; Region: 2A0114; TIGR00893 1215088009338 putative substrate translocation pore; other site 1215088009339 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1215088009340 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1215088009341 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1215088009342 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1215088009343 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1215088009344 dimer interface [polypeptide binding]; other site 1215088009345 NADP binding site [chemical binding]; other site 1215088009346 catalytic residues [active] 1215088009347 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1215088009348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088009349 DNA-binding site [nucleotide binding]; DNA binding site 1215088009350 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1215088009351 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088009352 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088009353 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 1215088009354 putative substrate binding pocket [chemical binding]; other site 1215088009355 putative dimerization interface [polypeptide binding]; other site 1215088009356 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1215088009357 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 1215088009358 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1215088009359 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 1215088009360 N-terminal plug; other site 1215088009361 ligand-binding site [chemical binding]; other site 1215088009362 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 1215088009363 YcaO domain protein; Region: TIGR03549 1215088009364 OsmC-like protein; Region: OsmC; pfam02566 1215088009365 YcaO-like family; Region: YcaO; pfam02624 1215088009366 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1215088009367 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 1215088009368 catalytic loop [active] 1215088009369 iron binding site [ion binding]; other site 1215088009370 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1215088009371 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1215088009372 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1215088009373 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1215088009374 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1215088009375 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1215088009376 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1215088009377 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1215088009378 Cytochrome c; Region: Cytochrom_C; pfam00034 1215088009379 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1215088009380 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1215088009381 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1215088009382 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 1215088009383 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088009384 substrate binding pocket [chemical binding]; other site 1215088009385 membrane-bound complex binding site; other site 1215088009386 hinge residues; other site 1215088009387 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1215088009388 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1215088009389 BCCT family transporter; Region: BCCT; pfam02028 1215088009390 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 1215088009391 dimer interface [polypeptide binding]; other site 1215088009392 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1215088009393 Bacterial SH3 domain; Region: SH3_3; pfam08239 1215088009394 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088009395 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088009396 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 1215088009397 putative effector binding pocket; other site 1215088009398 dimerization interface [polypeptide binding]; other site 1215088009399 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1215088009400 classical (c) SDRs; Region: SDR_c; cd05233 1215088009401 NAD(P) binding site [chemical binding]; other site 1215088009402 active site 1215088009403 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1215088009404 active site 1 [active] 1215088009405 dimer interface [polypeptide binding]; other site 1215088009406 hexamer interface [polypeptide binding]; other site 1215088009407 active site 2 [active] 1215088009408 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088009409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088009410 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 1215088009411 dimerization interface [polypeptide binding]; other site 1215088009412 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1215088009413 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1215088009414 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088009415 Coenzyme A binding pocket [chemical binding]; other site 1215088009416 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1215088009417 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 1215088009418 dimer interface [polypeptide binding]; other site 1215088009419 conserved gate region; other site 1215088009420 putative PBP binding loops; other site 1215088009421 ABC-ATPase subunit interface; other site 1215088009422 NMT1-like family; Region: NMT1_2; pfam13379 1215088009423 NMT1/THI5 like; Region: NMT1; pfam09084 1215088009424 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1215088009425 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1215088009426 Walker A/P-loop; other site 1215088009427 ATP binding site [chemical binding]; other site 1215088009428 Q-loop/lid; other site 1215088009429 ABC transporter signature motif; other site 1215088009430 Walker B; other site 1215088009431 D-loop; other site 1215088009432 H-loop/switch region; other site 1215088009433 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1215088009434 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088009435 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1215088009436 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1215088009437 Cupin; Region: Cupin_6; pfam12852 1215088009438 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1215088009439 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088009440 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1215088009441 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1215088009442 Na binding site [ion binding]; other site 1215088009443 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1215088009444 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1215088009445 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1215088009446 Amino acid synthesis; Region: AA_synth; pfam06684 1215088009447 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1215088009448 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1215088009449 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1215088009450 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1215088009451 NAD(P) binding site [chemical binding]; other site 1215088009452 catalytic residues [active] 1215088009453 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1215088009454 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1215088009455 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1215088009456 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088009457 DNA-binding site [nucleotide binding]; DNA binding site 1215088009458 FCD domain; Region: FCD; pfam07729 1215088009459 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 1215088009460 nudix motif; other site 1215088009461 PAS fold; Region: PAS_4; pfam08448 1215088009462 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1215088009463 GAF domain; Region: GAF; pfam01590 1215088009464 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 1215088009465 dimer interface [polypeptide binding]; other site 1215088009466 phosphorylation site [posttranslational modification] 1215088009467 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 1215088009468 ATP binding site [chemical binding]; other site 1215088009469 Mg2+ binding site [ion binding]; other site 1215088009470 G-X-G motif; other site 1215088009471 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1215088009472 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1215088009473 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1215088009474 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 1215088009475 putative DNA binding site [nucleotide binding]; other site 1215088009476 putative Zn2+ binding site [ion binding]; other site 1215088009477 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088009478 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1215088009479 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1215088009480 Na binding site [ion binding]; other site 1215088009481 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1215088009482 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 1215088009483 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 1215088009484 active site 1215088009485 FMN binding site [chemical binding]; other site 1215088009486 substrate binding site [chemical binding]; other site 1215088009487 3Fe-4S cluster binding site [ion binding]; other site 1215088009488 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 1215088009489 domain_subunit interface; other site 1215088009490 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 1215088009491 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 1215088009492 putative active site [active] 1215088009493 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 1215088009494 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1215088009495 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1215088009496 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 1215088009497 non-specific DNA binding site [nucleotide binding]; other site 1215088009498 salt bridge; other site 1215088009499 sequence-specific DNA binding site [nucleotide binding]; other site 1215088009500 Cupin domain; Region: Cupin_2; pfam07883 1215088009501 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1215088009502 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 1215088009503 catalytic triad [active] 1215088009504 metal binding site [ion binding]; metal-binding site 1215088009505 conserved cis-peptide bond; other site 1215088009506 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1215088009507 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 1215088009508 active site 1215088009509 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088009510 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1215088009511 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 1215088009512 putative dimerization interface [polypeptide binding]; other site 1215088009513 Predicted membrane protein [Function unknown]; Region: COG2855 1215088009514 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1215088009515 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1215088009516 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088009517 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088009518 metal binding site [ion binding]; metal-binding site 1215088009519 active site 1215088009520 I-site; other site 1215088009521 EamA-like transporter family; Region: EamA; pfam00892 1215088009522 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1215088009523 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1215088009524 domain interface [polypeptide binding]; other site 1215088009525 putative active site [active] 1215088009526 catalytic site [active] 1215088009527 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1215088009528 domain interface [polypeptide binding]; other site 1215088009529 putative active site [active] 1215088009530 catalytic site [active] 1215088009531 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1215088009532 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1215088009533 dimer interface [polypeptide binding]; other site 1215088009534 active site 1215088009535 heme binding site [chemical binding]; other site 1215088009536 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1215088009537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088009538 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088009539 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 1215088009540 putative substrate binding pocket [chemical binding]; other site 1215088009541 putative dimerization interface [polypeptide binding]; other site 1215088009542 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1215088009543 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1215088009544 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 1215088009545 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1215088009546 active site 1215088009547 catalytic tetrad [active] 1215088009548 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 1215088009549 PAS domain; Region: PAS_9; pfam13426 1215088009550 putative active site [active] 1215088009551 heme pocket [chemical binding]; other site 1215088009552 PAS fold; Region: PAS_4; pfam08448 1215088009553 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 1215088009554 putative active site [active] 1215088009555 heme pocket [chemical binding]; other site 1215088009556 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088009557 metal binding site [ion binding]; metal-binding site 1215088009558 active site 1215088009559 I-site; other site 1215088009560 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 1215088009561 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088009562 Coenzyme A binding pocket [chemical binding]; other site 1215088009563 potential frameshift: common BLAST hit: gi|339488078|ref|YP_004702606.1| catechol 1,2-dioxygenase 1215088009564 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1215088009565 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1215088009566 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 1215088009567 octamer interface [polypeptide binding]; other site 1215088009568 active site 1215088009569 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1215088009570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088009571 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 1215088009572 dimerizarion interface [polypeptide binding]; other site 1215088009573 CrgA pocket; other site 1215088009574 substrate binding pocket [chemical binding]; other site 1215088009575 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 1215088009576 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1215088009577 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1215088009578 catalytic residue [active] 1215088009579 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088009580 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 1215088009581 DNA binding residues [nucleotide binding] 1215088009582 dimerization interface [polypeptide binding]; other site 1215088009583 hypothetical protein; Provisional; Region: PRK07036 1215088009584 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 1215088009585 inhibitor-cofactor binding pocket; inhibition site 1215088009586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088009587 catalytic residue [active] 1215088009588 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1215088009589 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1215088009590 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1215088009591 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1215088009592 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1215088009593 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1215088009594 NAD binding site [chemical binding]; other site 1215088009595 catalytic residues [active] 1215088009596 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1215088009597 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 1215088009598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088009599 homodimer interface [polypeptide binding]; other site 1215088009600 catalytic residue [active] 1215088009601 alanine racemase; Reviewed; Region: PRK13340 1215088009602 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 1215088009603 active site 1215088009604 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1215088009605 dimer interface [polypeptide binding]; other site 1215088009606 substrate binding site [chemical binding]; other site 1215088009607 catalytic residues [active] 1215088009608 hypothetical protein; Provisional; Region: PRK07524 1215088009609 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1215088009610 PYR/PP interface [polypeptide binding]; other site 1215088009611 dimer interface [polypeptide binding]; other site 1215088009612 TPP binding site [chemical binding]; other site 1215088009613 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1215088009614 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 1215088009615 TPP-binding site [chemical binding]; other site 1215088009616 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1215088009617 CoA binding domain; Region: CoA_binding_2; pfam13380 1215088009618 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1215088009619 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1215088009620 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1215088009621 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088009622 active site 1215088009623 enoyl-CoA hydratase; Provisional; Region: PRK06688 1215088009624 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 1215088009625 substrate binding site [chemical binding]; other site 1215088009626 oxyanion hole (OAH) forming residues; other site 1215088009627 trimer interface [polypeptide binding]; other site 1215088009628 S-methylmethionine transporter; Provisional; Region: PRK11387 1215088009629 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1215088009630 HAMP domain; Region: HAMP; pfam00672 1215088009631 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 1215088009632 dimer interface [polypeptide binding]; other site 1215088009633 phosphorylation site [posttranslational modification] 1215088009634 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 1215088009635 ATP binding site [chemical binding]; other site 1215088009636 Mg2+ binding site [ion binding]; other site 1215088009637 G-X-G motif; other site 1215088009638 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088009639 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088009640 active site 1215088009641 phosphorylation site [posttranslational modification] 1215088009642 intermolecular recognition site; other site 1215088009643 dimerization interface [polypeptide binding]; other site 1215088009644 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088009645 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 1215088009646 substrate binding pocket [chemical binding]; other site 1215088009647 membrane-bound complex binding site; other site 1215088009648 hinge residues; other site 1215088009649 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 1215088009650 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088009651 active site 1215088009652 phosphorylation site [posttranslational modification] 1215088009653 intermolecular recognition site; other site 1215088009654 dimerization interface [polypeptide binding]; other site 1215088009655 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 1215088009656 DNA binding site [nucleotide binding] 1215088009657 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1215088009658 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088009659 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1215088009660 enoyl-CoA hydratase; Provisional; Region: PRK06688 1215088009661 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 1215088009662 substrate binding site [chemical binding]; other site 1215088009663 oxyanion hole (OAH) forming residues; other site 1215088009664 trimer interface [polypeptide binding]; other site 1215088009665 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 1215088009666 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1215088009667 FtsX-like permease family; Region: FtsX; pfam02687 1215088009668 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1215088009669 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1215088009670 Walker A/P-loop; other site 1215088009671 ATP binding site [chemical binding]; other site 1215088009672 Q-loop/lid; other site 1215088009673 ABC transporter signature motif; other site 1215088009674 Walker B; other site 1215088009675 D-loop; other site 1215088009676 H-loop/switch region; other site 1215088009677 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1215088009678 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1215088009679 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1215088009680 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1215088009681 RHS protein; Region: RHS; pfam03527 1215088009682 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088009683 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1215088009684 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1215088009685 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1215088009686 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1215088009687 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1215088009688 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1215088009689 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1215088009690 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 1215088009691 putative C-terminal domain interface [polypeptide binding]; other site 1215088009692 putative GSH binding site (G-site) [chemical binding]; other site 1215088009693 putative dimer interface [polypeptide binding]; other site 1215088009694 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1215088009695 N-terminal domain interface [polypeptide binding]; other site 1215088009696 conserverd hypothetical protein; Region: TIGR02448 1215088009697 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1215088009698 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088009699 DNA-binding site [nucleotide binding]; DNA binding site 1215088009700 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1215088009701 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1215088009702 FAD binding domain; Region: FAD_binding_4; pfam01565 1215088009703 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1215088009704 FAD binding domain; Region: FAD_binding_4; pfam01565 1215088009705 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1215088009706 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 1215088009707 Cysteine-rich domain; Region: CCG; pfam02754 1215088009708 Cysteine-rich domain; Region: CCG; pfam02754 1215088009709 Domain of unknown function (DUF336); Region: DUF336; cl01249 1215088009710 malate synthase G; Provisional; Region: PRK02999 1215088009711 active site 1215088009712 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 1215088009713 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088009714 DNA-binding site [nucleotide binding]; DNA binding site 1215088009715 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 1215088009716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088009717 homodimer interface [polypeptide binding]; other site 1215088009718 catalytic residue [active] 1215088009719 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1215088009720 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088009721 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 1215088009722 nucleoside/Zn binding site; other site 1215088009723 dimer interface [polypeptide binding]; other site 1215088009724 catalytic motif [active] 1215088009725 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1215088009726 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1215088009727 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1215088009728 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088009729 SurA N-terminal domain; Region: SurA_N; pfam09312 1215088009730 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088009731 beta-ketothiolase; Provisional; Region: PRK09051 1215088009732 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 1215088009733 dimer interface [polypeptide binding]; other site 1215088009734 active site 1215088009735 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1215088009736 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1215088009737 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1215088009738 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088009739 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088009740 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088009741 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088009742 active site 1215088009743 phosphorylation site [posttranslational modification] 1215088009744 intermolecular recognition site; other site 1215088009745 dimerization interface [polypeptide binding]; other site 1215088009746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088009747 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088009748 active site 1215088009749 phosphorylation site [posttranslational modification] 1215088009750 intermolecular recognition site; other site 1215088009751 dimerization interface [polypeptide binding]; other site 1215088009752 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088009753 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 1215088009754 dimer interface [polypeptide binding]; other site 1215088009755 phosphorylation site [posttranslational modification] 1215088009756 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 1215088009757 ATP binding site [chemical binding]; other site 1215088009758 Mg2+ binding site [ion binding]; other site 1215088009759 G-X-G motif; other site 1215088009760 CheB methylesterase; Region: CheB_methylest; pfam01339 1215088009761 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1215088009762 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1215088009763 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1215088009764 CHASE3 domain; Region: CHASE3; pfam05227 1215088009765 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1215088009766 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1215088009767 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 1215088009768 dimer interface [polypeptide binding]; other site 1215088009769 phosphorylation site [posttranslational modification] 1215088009770 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 1215088009771 ATP binding site [chemical binding]; other site 1215088009772 Mg2+ binding site [ion binding]; other site 1215088009773 G-X-G motif; other site 1215088009774 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088009775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088009776 active site 1215088009777 phosphorylation site [posttranslational modification] 1215088009778 intermolecular recognition site; other site 1215088009779 dimerization interface [polypeptide binding]; other site 1215088009780 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088009781 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088009782 active site 1215088009783 phosphorylation site [posttranslational modification] 1215088009784 intermolecular recognition site; other site 1215088009785 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088009786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088009787 active site 1215088009788 phosphorylation site [posttranslational modification] 1215088009789 intermolecular recognition site; other site 1215088009790 dimerization interface [polypeptide binding]; other site 1215088009791 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088009792 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088009793 active site 1215088009794 phosphorylation site [posttranslational modification] 1215088009795 intermolecular recognition site; other site 1215088009796 dimerization interface [polypeptide binding]; other site 1215088009797 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 1215088009798 active site 1215088009799 SAM binding site [chemical binding]; other site 1215088009800 homodimer interface [polypeptide binding]; other site 1215088009801 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088009802 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1215088009803 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1215088009804 dimer interface [polypeptide binding]; other site 1215088009805 active site 1215088009806 metal binding site [ion binding]; metal-binding site 1215088009807 glutathione binding site [chemical binding]; other site 1215088009808 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 1215088009809 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1215088009810 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1215088009811 shikimate binding site; other site 1215088009812 NAD(P) binding site [chemical binding]; other site 1215088009813 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1215088009814 catalytic residue [active] 1215088009815 Predicted transcriptional regulator [Transcription]; Region: COG2932 1215088009816 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 1215088009817 Catalytic site [active] 1215088009818 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 1215088009819 Alginate lyase; Region: Alginate_lyase2; pfam08787 1215088009820 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1215088009821 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1215088009822 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 1215088009823 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1215088009824 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1215088009825 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1215088009826 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1215088009827 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1215088009828 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 1215088009829 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1215088009830 metal binding site [ion binding]; metal-binding site 1215088009831 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1215088009832 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1215088009833 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1215088009834 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 1215088009835 ABC-ATPase subunit interface; other site 1215088009836 dimer interface [polypeptide binding]; other site 1215088009837 putative PBP binding regions; other site 1215088009838 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1215088009839 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 1215088009840 intersubunit interface [polypeptide binding]; other site 1215088009841 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 1215088009842 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 1215088009843 Isochorismatase family; Region: Isochorismatase; pfam00857 1215088009844 catalytic triad [active] 1215088009845 dimer interface [polypeptide binding]; other site 1215088009846 conserved cis-peptide bond; other site 1215088009847 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1215088009848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 1215088009849 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1215088009850 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1215088009851 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1215088009852 putative active site [active] 1215088009853 putative substrate binding site [chemical binding]; other site 1215088009854 putative cosubstrate binding site; other site 1215088009855 catalytic site [active] 1215088009856 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14194 1215088009857 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1215088009858 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1215088009859 homodimer interface [polypeptide binding]; other site 1215088009860 NADP binding site [chemical binding]; other site 1215088009861 substrate binding site [chemical binding]; other site 1215088009862 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1215088009863 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1215088009864 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 1215088009865 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1215088009866 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1215088009867 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1215088009868 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1215088009869 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1215088009870 LysR family transcriptional regulator; Provisional; Region: PRK14997 1215088009871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088009872 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 1215088009873 putative effector binding pocket; other site 1215088009874 dimerization interface [polypeptide binding]; other site 1215088009875 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1215088009876 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1215088009877 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1215088009878 Pirin-related protein [General function prediction only]; Region: COG1741 1215088009879 Pirin; Region: Pirin; pfam02678 1215088009880 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1215088009881 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK12485 1215088009882 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1215088009883 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1215088009884 dimerization interface [polypeptide binding]; other site 1215088009885 active site 1215088009886 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1215088009887 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1215088009888 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 1215088009889 dimer interface [polypeptide binding]; other site 1215088009890 conserved gate region; other site 1215088009891 putative PBP binding loops; other site 1215088009892 ABC-ATPase subunit interface; other site 1215088009893 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1215088009894 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 1215088009895 dimer interface [polypeptide binding]; other site 1215088009896 conserved gate region; other site 1215088009897 putative PBP binding loops; other site 1215088009898 ABC-ATPase subunit interface; other site 1215088009899 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1215088009900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088009901 Walker A/P-loop; other site 1215088009902 ATP binding site [chemical binding]; other site 1215088009903 Q-loop/lid; other site 1215088009904 ABC transporter signature motif; other site 1215088009905 Walker B; other site 1215088009906 D-loop; other site 1215088009907 H-loop/switch region; other site 1215088009908 TOBE domain; Region: TOBE_2; pfam08402 1215088009909 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1215088009910 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1215088009911 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088009912 ligand binding site [chemical binding]; other site 1215088009913 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1215088009914 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1215088009915 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1215088009916 FAD binding site [chemical binding]; other site 1215088009917 substrate binding site [chemical binding]; other site 1215088009918 catalytic base [active] 1215088009919 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1215088009920 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088009921 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 1215088009922 substrate binding pocket [chemical binding]; other site 1215088009923 dimerization interface [polypeptide binding]; other site 1215088009924 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 1215088009925 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1215088009926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1215088009927 catalytic residue [active] 1215088009928 RES domain; Region: RES; pfam08808 1215088009929 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1215088009930 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1215088009931 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 1215088009932 FMN binding site [chemical binding]; other site 1215088009933 dimer interface [polypeptide binding]; other site 1215088009934 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088009935 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088009936 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 1215088009937 putative effector binding pocket; other site 1215088009938 dimerization interface [polypeptide binding]; other site 1215088009939 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1215088009940 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088009941 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088009942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088009943 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1215088009944 putative arabinose transporter; Provisional; Region: PRK03545 1215088009945 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088009946 putative substrate translocation pore; other site 1215088009947 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1215088009948 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1215088009949 putative NAD(P) binding site [chemical binding]; other site 1215088009950 putative substrate binding site [chemical binding]; other site 1215088009951 catalytic Zn binding site [ion binding]; other site 1215088009952 structural Zn binding site [ion binding]; other site 1215088009953 dimer interface [polypeptide binding]; other site 1215088009954 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1215088009955 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1215088009956 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088009957 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088009958 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088009959 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088009960 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1215088009961 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1215088009962 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1215088009963 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1215088009964 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1215088009965 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1215088009966 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1215088009967 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1215088009968 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088009969 Coenzyme A binding pocket [chemical binding]; other site 1215088009970 serine/threonine transporter SstT; Provisional; Region: PRK13628 1215088009971 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1215088009972 Protein of unknown function, DUF480; Region: DUF480; pfam04337 1215088009973 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1215088009974 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 1215088009975 catalytic residue [active] 1215088009976 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 1215088009977 catalytic residues [active] 1215088009978 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1215088009979 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088009980 peroxiredoxin; Region: AhpC; TIGR03137 1215088009981 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 1215088009982 dimer interface [polypeptide binding]; other site 1215088009983 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1215088009984 catalytic triad [active] 1215088009985 peroxidatic and resolving cysteines [active] 1215088009986 glutathione reductase; Validated; Region: PRK06116 1215088009987 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1215088009988 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088009989 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1215088009990 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1215088009991 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1215088009992 active site 1215088009993 tetramer interface; other site 1215088009994 Cytochrome c [Energy production and conversion]; Region: COG3258 1215088009995 Cytochrome c; Region: Cytochrom_C; pfam00034 1215088009996 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1215088009997 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1215088009998 Cytochrome c; Region: Cytochrom_C; cl11414 1215088009999 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 1215088010000 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1215088010001 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 1215088010002 FMN binding site [chemical binding]; other site 1215088010003 substrate binding site [chemical binding]; other site 1215088010004 putative catalytic residue [active] 1215088010005 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1215088010006 molybdenum ABC transporter, periplasmic molybdate-binding protein; Region: modA; TIGR01256 1215088010007 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1215088010008 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 1215088010009 dimer interface [polypeptide binding]; other site 1215088010010 conserved gate region; other site 1215088010011 putative PBP binding loops; other site 1215088010012 ABC-ATPase subunit interface; other site 1215088010013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088010014 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1215088010015 Walker A/P-loop; other site 1215088010016 ATP binding site [chemical binding]; other site 1215088010017 Q-loop/lid; other site 1215088010018 ABC transporter signature motif; other site 1215088010019 Walker B; other site 1215088010020 D-loop; other site 1215088010021 H-loop/switch region; other site 1215088010022 TOBE domain; Region: TOBE; cl01440 1215088010023 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1215088010024 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 1215088010025 active site 1215088010026 DNA binding site [nucleotide binding] 1215088010027 Int/Topo IB signature motif; other site 1215088010028 catalytic residues [active] 1215088010029 carbon storage regulator; Provisional; Region: PRK01712 1215088010030 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088010031 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088010032 active site 1215088010033 phosphorylation site [posttranslational modification] 1215088010034 intermolecular recognition site; other site 1215088010035 dimerization interface [polypeptide binding]; other site 1215088010036 circadian clock protein KaiC; Reviewed; Region: PRK09302 1215088010037 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 1215088010038 Walker A motif; other site 1215088010039 ATP binding site [chemical binding]; other site 1215088010040 Walker B motif; other site 1215088010041 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 1215088010042 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 1215088010043 Walker A motif; other site 1215088010044 Walker A motif; other site 1215088010045 ATP binding site [chemical binding]; other site 1215088010046 Walker B motif; other site 1215088010047 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 1215088010048 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1215088010049 putative active site [active] 1215088010050 heme pocket [chemical binding]; other site 1215088010051 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 1215088010052 dimer interface [polypeptide binding]; other site 1215088010053 phosphorylation site [posttranslational modification] 1215088010054 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 1215088010055 ATP binding site [chemical binding]; other site 1215088010056 Mg2+ binding site [ion binding]; other site 1215088010057 G-X-G motif; other site 1215088010058 Predicted membrane protein [Function unknown]; Region: COG2259 1215088010059 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1215088010060 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 1215088010061 NAD binding site [chemical binding]; other site 1215088010062 substrate binding site [chemical binding]; other site 1215088010063 catalytic Zn binding site [ion binding]; other site 1215088010064 tetramer interface [polypeptide binding]; other site 1215088010065 structural Zn binding site [ion binding]; other site 1215088010066 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 1215088010067 active site 1215088010068 catalytic residues [active] 1215088010069 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1215088010070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088010071 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 1215088010072 dimerization interface [polypeptide binding]; other site 1215088010073 substrate binding pocket [chemical binding]; other site 1215088010074 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1215088010075 D-mannonate oxidoreductase; Provisional; Region: PRK08277 1215088010076 putative NAD(P) binding site [chemical binding]; other site 1215088010077 putative active site [active] 1215088010078 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 1215088010079 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1215088010080 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1215088010081 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1215088010082 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1215088010083 putative inner membrane peptidase; Provisional; Region: PRK11778 1215088010084 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1215088010085 tandem repeat interface [polypeptide binding]; other site 1215088010086 oligomer interface [polypeptide binding]; other site 1215088010087 active site residues [active] 1215088010088 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 1215088010089 catalytic core [active] 1215088010090 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1215088010091 Phosphotransferase enzyme family; Region: APH; pfam01636 1215088010092 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 1215088010093 putative active site [active] 1215088010094 putative substrate binding site [chemical binding]; other site 1215088010095 ATP binding site [chemical binding]; other site 1215088010096 short chain dehydrogenase; Provisional; Region: PRK07035 1215088010097 classical (c) SDRs; Region: SDR_c; cd05233 1215088010098 NAD(P) binding site [chemical binding]; other site 1215088010099 active site 1215088010100 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 1215088010101 S-adenosylmethionine binding site [chemical binding]; other site 1215088010102 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 1215088010103 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 1215088010104 transmembrane helices; other site 1215088010105 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1215088010106 TrkA-C domain; Region: TrkA_C; pfam02080 1215088010107 TrkA-C domain; Region: TrkA_C; pfam02080 1215088010108 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 1215088010109 transmembrane helices; other site 1215088010110 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088010111 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088010112 metal binding site [ion binding]; metal-binding site 1215088010113 active site 1215088010114 I-site; other site 1215088010115 hypothetical protein; Provisional; Region: PRK10621 1215088010116 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1215088010117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088010118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088010119 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 1215088010120 putative effector binding pocket; other site 1215088010121 dimerization interface [polypeptide binding]; other site 1215088010122 Isochorismatase family; Region: Isochorismatase; pfam00857 1215088010123 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 1215088010124 catalytic triad [active] 1215088010125 conserved cis-peptide bond; other site 1215088010126 portal vertex protein; Provisional; Region: Q; PHA02536 1215088010127 Phage portal protein; Region: Phage_portal; pfam04860 1215088010128 terminase ATPase subunit; Provisional; Region: P; PHA02535 1215088010129 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1215088010130 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 1215088010131 capsid protein; Provisional; Region: N; PHA02538 1215088010132 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1215088010133 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1215088010134 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1215088010135 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1215088010136 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 1215088010137 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1215088010138 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 1215088010139 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 1215088010140 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1215088010141 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1215088010142 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1215088010143 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1215088010144 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1215088010145 baseplate assembly protein; Provisional; Region: J; PHA02568 1215088010146 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 1215088010147 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 1215088010148 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1215088010149 major tail sheath protein; Provisional; Region: FI; PHA02560 1215088010150 Phage tail tube protein FII; Region: Phage_tube; cl01390 1215088010151 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1215088010152 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 1215088010153 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1215088010154 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1215088010155 tail protein; Provisional; Region: D; PHA02561 1215088010156 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1215088010157 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 1215088010158 sequence-specific DNA binding site [nucleotide binding]; other site 1215088010159 salt bridge; other site 1215088010160 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 1215088010161 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1215088010162 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1215088010163 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 1215088010164 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1215088010165 active site 1215088010166 metal binding site [ion binding]; metal-binding site 1215088010167 interdomain interaction site; other site 1215088010168 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 1215088010169 active site 1215088010170 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1215088010171 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1215088010172 substrate interaction site [chemical binding]; other site 1215088010173 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1215088010174 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 1215088010175 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 1215088010176 Int/Topo IB signature motif; other site 1215088010177 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1215088010178 YccA-like proteins; Region: YccA_like; cd10433 1215088010179 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1215088010180 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1215088010181 sulfur relay protein TusC; Validated; Region: PRK00211 1215088010182 DsrH like protein; Region: DsrH; cl17347 1215088010183 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1215088010184 hypothetical protein; Validated; Region: PRK09071 1215088010185 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1215088010186 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1215088010187 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1215088010188 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1215088010189 putative dimer interface [polypeptide binding]; other site 1215088010190 N-terminal domain interface [polypeptide binding]; other site 1215088010191 putative substrate binding pocket (H-site) [chemical binding]; other site 1215088010192 siroheme synthase; Provisional; Region: cysG; PRK10637 1215088010193 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1215088010194 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1215088010195 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1215088010196 active site 1215088010197 SAM binding site [chemical binding]; other site 1215088010198 homodimer interface [polypeptide binding]; other site 1215088010199 seryl-tRNA synthetase; Provisional; Region: PRK05431 1215088010200 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1215088010201 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 1215088010202 dimer interface [polypeptide binding]; other site 1215088010203 active site 1215088010204 motif 1; other site 1215088010205 motif 2; other site 1215088010206 motif 3; other site 1215088010207 camphor resistance protein CrcB; Provisional; Region: PRK14234 1215088010208 recombination factor protein RarA; Reviewed; Region: PRK13342 1215088010209 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 1215088010210 Walker A motif; other site 1215088010211 ATP binding site [chemical binding]; other site 1215088010212 Walker B motif; other site 1215088010213 arginine finger; other site 1215088010214 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1215088010215 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1215088010216 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1215088010217 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1215088010218 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1215088010219 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1215088010220 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1215088010221 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1215088010222 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1215088010223 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1215088010224 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1215088010225 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 1215088010226 rRNA binding site [nucleotide binding]; other site 1215088010227 predicted 30S ribosome binding site; other site 1215088010228 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1215088010229 Clp amino terminal domain; Region: Clp_N; pfam02861 1215088010230 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 1215088010231 Walker A motif; other site 1215088010232 ATP binding site [chemical binding]; other site 1215088010233 Walker B motif; other site 1215088010234 arginine finger; other site 1215088010235 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 1215088010236 Walker A motif; other site 1215088010237 ATP binding site [chemical binding]; other site 1215088010238 Walker B motif; other site 1215088010239 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1215088010240 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1215088010241 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 1215088010242 DNA-binding site [nucleotide binding]; DNA binding site 1215088010243 RNA-binding motif; other site 1215088010244 isocitrate dehydrogenase; Validated; Region: PRK07362 1215088010245 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1215088010246 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1215088010247 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1215088010248 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 1215088010249 nudix motif; other site 1215088010250 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1215088010251 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 1215088010252 putative lysogenization regulator; Reviewed; Region: PRK00218 1215088010253 adenylosuccinate lyase; Provisional; Region: PRK09285 1215088010254 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1215088010255 tetramer interface [polypeptide binding]; other site 1215088010256 active site 1215088010257 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1215088010258 Cupin domain; Region: Cupin_2; cl17218 1215088010259 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1215088010260 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088010261 Coenzyme A binding pocket [chemical binding]; other site 1215088010262 DNA topoisomerase III; Provisional; Region: PRK07726 1215088010263 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 1215088010264 active site 1215088010265 putative interdomain interaction site [polypeptide binding]; other site 1215088010266 putative metal-binding site [ion binding]; other site 1215088010267 putative nucleotide binding site [chemical binding]; other site 1215088010268 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 1215088010269 domain I; other site 1215088010270 DNA binding groove [nucleotide binding] 1215088010271 phosphate binding site [ion binding]; other site 1215088010272 domain II; other site 1215088010273 domain III; other site 1215088010274 nucleotide binding site [chemical binding]; other site 1215088010275 catalytic site [active] 1215088010276 domain IV; other site 1215088010277 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088010278 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088010279 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1215088010280 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1215088010281 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088010282 hypothetical protein; Provisional; Region: PRK10621 1215088010283 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1215088010284 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1215088010285 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1215088010286 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1215088010287 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 1215088010288 putative NADH binding site [chemical binding]; other site 1215088010289 putative active site [active] 1215088010290 nudix motif; other site 1215088010291 putative metal binding site [ion binding]; other site 1215088010292 enoyl-CoA hydratase; Provisional; Region: PRK06142 1215088010293 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 1215088010294 substrate binding site [chemical binding]; other site 1215088010295 oxyanion hole (OAH) forming residues; other site 1215088010296 trimer interface [polypeptide binding]; other site 1215088010297 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1215088010298 RibD C-terminal domain; Region: RibD_C; cl17279 1215088010299 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1215088010300 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1215088010301 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_29; cd04688 1215088010302 nudix motif; other site 1215088010303 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1215088010304 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 1215088010305 AAA domain; Region: AAA_17; pfam13207 1215088010306 allantoate amidohydrolase; Reviewed; Region: PRK12893 1215088010307 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1215088010308 active site 1215088010309 metal binding site [ion binding]; metal-binding site 1215088010310 dimer interface [polypeptide binding]; other site 1215088010311 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 1215088010312 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1215088010313 Na binding site [ion binding]; other site 1215088010314 putative substrate binding site [chemical binding]; other site 1215088010315 phenylhydantoinase; Validated; Region: PRK08323 1215088010316 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 1215088010317 tetramer interface [polypeptide binding]; other site 1215088010318 active site 1215088010319 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1215088010320 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 1215088010321 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1215088010322 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088010323 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1215088010324 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 1215088010325 homodimer interface [polypeptide binding]; other site 1215088010326 active site 1215088010327 FMN binding site [chemical binding]; other site 1215088010328 substrate binding site [chemical binding]; other site 1215088010329 4Fe-4S binding domain; Region: Fer4; cl02805 1215088010330 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 1215088010331 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1215088010332 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088010333 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1215088010334 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1215088010335 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1215088010336 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 1215088010337 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1215088010338 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1215088010339 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1215088010340 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1215088010341 glycogen synthase; Provisional; Region: glgA; PRK00654 1215088010342 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 1215088010343 ADP-binding pocket [chemical binding]; other site 1215088010344 homodimer interface [polypeptide binding]; other site 1215088010345 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 1215088010346 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1215088010347 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1215088010348 catalytic site [active] 1215088010349 active site 1215088010350 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1215088010351 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1215088010352 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1215088010353 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1215088010354 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1215088010355 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1215088010356 active site 1215088010357 catalytic site [active] 1215088010358 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1215088010359 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1215088010360 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 1215088010361 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1215088010362 active site 1215088010363 catalytic site [active] 1215088010364 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1215088010365 putative catalytic site [active] 1215088010366 putative metal binding site [ion binding]; other site 1215088010367 putative phosphate binding site [ion binding]; other site 1215088010368 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1215088010369 glycogen branching enzyme; Provisional; Region: PRK05402 1215088010370 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1215088010371 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1215088010372 active site 1215088010373 catalytic site [active] 1215088010374 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1215088010375 trehalose synthase; Region: treS_nterm; TIGR02456 1215088010376 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1215088010377 active site 1215088010378 catalytic site [active] 1215088010379 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1215088010380 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1215088010381 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1215088010382 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1215088010383 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1215088010384 active site 1215088010385 homodimer interface [polypeptide binding]; other site 1215088010386 catalytic site [active] 1215088010387 acceptor binding site [chemical binding]; other site 1215088010388 AMP-binding domain protein; Validated; Region: PRK08315 1215088010389 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1215088010390 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1215088010391 acyl-activating enzyme (AAE) consensus motif; other site 1215088010392 putative AMP binding site [chemical binding]; other site 1215088010393 putative active site [active] 1215088010394 putative CoA binding site [chemical binding]; other site 1215088010395 isovaleryl-CoA dehydrogenase; Region: PLN02519 1215088010396 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1215088010397 substrate binding site [chemical binding]; other site 1215088010398 FAD binding site [chemical binding]; other site 1215088010399 catalytic base [active] 1215088010400 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1215088010401 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1215088010402 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1215088010403 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 1215088010404 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 1215088010405 substrate binding site [chemical binding]; other site 1215088010406 oxyanion hole (OAH) forming residues; other site 1215088010407 trimer interface [polypeptide binding]; other site 1215088010408 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1215088010409 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1215088010410 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1215088010411 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1215088010412 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 1215088010413 carboxyltransferase (CT) interaction site; other site 1215088010414 biotinylation site [posttranslational modification]; other site 1215088010415 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 1215088010416 non-specific DNA binding site [nucleotide binding]; other site 1215088010417 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1215088010418 salt bridge; other site 1215088010419 sequence-specific DNA binding site [nucleotide binding]; other site 1215088010420 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 1215088010421 Catalytic site [active] 1215088010422 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1215088010423 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 1215088010424 non-specific DNA binding site [nucleotide binding]; other site 1215088010425 salt bridge; other site 1215088010426 sequence-specific DNA binding site [nucleotide binding]; other site 1215088010427 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 1215088010428 Catalytic site [active] 1215088010429 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; cl17257 1215088010430 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088010431 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088010432 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1215088010433 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088010434 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 1215088010435 dimerization interface [polypeptide binding]; other site 1215088010436 substrate binding pocket [chemical binding]; other site 1215088010437 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1215088010438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088010439 NAD(P) binding site [chemical binding]; other site 1215088010440 active site 1215088010441 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088010442 D-galactonate transporter; Region: 2A0114; TIGR00893 1215088010443 putative substrate translocation pore; other site 1215088010444 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 1215088010445 TPP-binding site [chemical binding]; other site 1215088010446 dimer interface [polypeptide binding]; other site 1215088010447 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1215088010448 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 1215088010449 PYR/PP interface [polypeptide binding]; other site 1215088010450 dimer interface [polypeptide binding]; other site 1215088010451 TPP binding site [chemical binding]; other site 1215088010452 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1215088010453 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1215088010454 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1215088010455 Walker A/P-loop; other site 1215088010456 ATP binding site [chemical binding]; other site 1215088010457 Q-loop/lid; other site 1215088010458 ABC transporter signature motif; other site 1215088010459 Walker B; other site 1215088010460 D-loop; other site 1215088010461 H-loop/switch region; other site 1215088010462 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088010463 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 1215088010464 dimer interface [polypeptide binding]; other site 1215088010465 conserved gate region; other site 1215088010466 putative PBP binding loops; other site 1215088010467 ABC-ATPase subunit interface; other site 1215088010468 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088010469 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 1215088010470 dimer interface [polypeptide binding]; other site 1215088010471 conserved gate region; other site 1215088010472 putative PBP binding loops; other site 1215088010473 ABC-ATPase subunit interface; other site 1215088010474 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088010475 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 1215088010476 substrate binding pocket [chemical binding]; other site 1215088010477 membrane-bound complex binding site; other site 1215088010478 hinge residues; other site 1215088010479 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1215088010480 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088010481 DNA-binding site [nucleotide binding]; DNA binding site 1215088010482 FCD domain; Region: FCD; pfam07729 1215088010483 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1215088010484 heme-binding site [chemical binding]; other site 1215088010485 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 1215088010486 PAS fold; Region: PAS_3; pfam08447 1215088010487 putative active site [active] 1215088010488 heme pocket [chemical binding]; other site 1215088010489 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088010490 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088010491 metal binding site [ion binding]; metal-binding site 1215088010492 active site 1215088010493 I-site; other site 1215088010494 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 1215088010495 PAS domain; Region: PAS_9; pfam13426 1215088010496 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 1215088010497 putative active site [active] 1215088010498 heme pocket [chemical binding]; other site 1215088010499 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088010500 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088010501 dimer interface [polypeptide binding]; other site 1215088010502 putative CheW interface [polypeptide binding]; other site 1215088010503 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1215088010504 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1215088010505 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1215088010506 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1215088010507 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1215088010508 Protein of unknown function (DUF3121); Region: DUF3121; pfam11319 1215088010509 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1215088010510 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1215088010511 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1215088010512 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 1215088010513 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1215088010514 RHS protein; Region: RHS; pfam03527 1215088010515 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088010516 Xanthomonas XOO_2897-like deaminase; Region: XOO_2897-deam; pfam14440 1215088010517 SUKH-4 immunity protein; Region: SUKH-4; pfam14435 1215088010518 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1215088010519 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1215088010520 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1215088010521 GIY-YIG motif/motif A; other site 1215088010522 active site 1215088010523 catalytic site [active] 1215088010524 putative DNA binding site [nucleotide binding]; other site 1215088010525 metal binding site [ion binding]; metal-binding site 1215088010526 UvrB/uvrC motif; Region: UVR; pfam02151 1215088010527 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1215088010528 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 1215088010529 DNA binding site [nucleotide binding] 1215088010530 response regulator; Provisional; Region: PRK09483 1215088010531 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088010532 active site 1215088010533 phosphorylation site [posttranslational modification] 1215088010534 intermolecular recognition site; other site 1215088010535 dimerization interface [polypeptide binding]; other site 1215088010536 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 1215088010537 DNA binding residues [nucleotide binding] 1215088010538 dimerization interface [polypeptide binding]; other site 1215088010539 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 1215088010540 Regulator of G protein signaling (RGS) domain superfamily; Region: RGS; cl02565 1215088010541 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1215088010542 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1215088010543 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1215088010544 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1215088010545 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1215088010546 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 1215088010547 C-terminal domain interface [polypeptide binding]; other site 1215088010548 GSH binding site (G-site) [chemical binding]; other site 1215088010549 dimer interface [polypeptide binding]; other site 1215088010550 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1215088010551 dimer interface [polypeptide binding]; other site 1215088010552 N-terminal domain interface [polypeptide binding]; other site 1215088010553 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 1215088010554 CoenzymeA binding site [chemical binding]; other site 1215088010555 subunit interaction site [polypeptide binding]; other site 1215088010556 PHB binding site; other site 1215088010557 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1215088010558 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1215088010559 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088010560 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 1215088010561 dimerization interface [polypeptide binding]; other site 1215088010562 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1215088010563 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 1215088010564 inhibitor-cofactor binding pocket; inhibition site 1215088010565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088010566 catalytic residue [active] 1215088010567 elongation factor G; Reviewed; Region: PRK00007 1215088010568 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1215088010569 G1 box; other site 1215088010570 putative GEF interaction site [polypeptide binding]; other site 1215088010571 GTP/Mg2+ binding site [chemical binding]; other site 1215088010572 Switch I region; other site 1215088010573 G2 box; other site 1215088010574 G3 box; other site 1215088010575 Switch II region; other site 1215088010576 G4 box; other site 1215088010577 G5 box; other site 1215088010578 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 1215088010579 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 1215088010580 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 1215088010581 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1215088010582 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1215088010583 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1215088010584 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 1215088010585 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1215088010586 isocitrate lyase; Provisional; Region: PRK15063 1215088010587 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 1215088010588 tetramer interface [polypeptide binding]; other site 1215088010589 active site 1215088010590 Mg2+/Mn2+ binding site [ion binding]; other site 1215088010591 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088010592 YhhN-like protein; Region: YhhN; pfam07947 1215088010593 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1215088010594 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1215088010595 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1215088010596 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1215088010597 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1215088010598 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1215088010599 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 1215088010600 putative dimer interface [polypeptide binding]; other site 1215088010601 [2Fe-2S] cluster binding site [ion binding]; other site 1215088010602 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1215088010603 SLBB domain; Region: SLBB; pfam10531 1215088010604 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1215088010605 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1215088010606 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 1215088010607 catalytic loop [active] 1215088010608 iron binding site [ion binding]; other site 1215088010609 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1215088010610 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 1215088010611 [4Fe-4S] binding site [ion binding]; other site 1215088010612 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 1215088010613 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1215088010614 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1215088010615 4Fe-4S binding domain; Region: Fer4; pfam00037 1215088010616 4Fe-4S binding domain; Region: Fer4; pfam00037 1215088010617 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1215088010618 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1215088010619 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1215088010620 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1215088010621 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1215088010622 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1215088010623 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1215088010624 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1215088010625 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1215088010626 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1215088010627 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1215088010628 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 1215088010629 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1215088010630 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 1215088010631 DNA binding residues [nucleotide binding] 1215088010632 dimerization interface [polypeptide binding]; other site 1215088010633 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1215088010634 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 1215088010635 Predicted flavoprotein [General function prediction only]; Region: COG0431 1215088010636 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1215088010637 arginine decarboxylase; Provisional; Region: PRK15029 1215088010638 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1215088010639 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 1215088010640 homodimer interface [polypeptide binding]; other site 1215088010641 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088010642 catalytic residue [active] 1215088010643 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1215088010644 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 1215088010645 active site 1215088010646 catalytic site [active] 1215088010647 substrate binding site [chemical binding]; other site 1215088010648 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1215088010649 RNA/DNA hybrid binding site [nucleotide binding]; other site 1215088010650 active site 1215088010651 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1215088010652 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 1215088010653 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1215088010654 MltD lipid attachment motif; Region: MLTD_N; pfam06474 1215088010655 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1215088010656 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 1215088010657 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1215088010658 catalytic residue [active] 1215088010659 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1215088010660 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1215088010661 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1215088010662 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 1215088010663 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1215088010664 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 1215088010665 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1215088010666 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 1215088010667 dimer interface [polypeptide binding]; other site 1215088010668 conserved gate region; other site 1215088010669 putative PBP binding loops; other site 1215088010670 ABC-ATPase subunit interface; other site 1215088010671 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1215088010672 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 1215088010673 dimer interface [polypeptide binding]; other site 1215088010674 conserved gate region; other site 1215088010675 putative PBP binding loops; other site 1215088010676 ABC-ATPase subunit interface; other site 1215088010677 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1215088010678 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1215088010679 Walker A/P-loop; other site 1215088010680 ATP binding site [chemical binding]; other site 1215088010681 Q-loop/lid; other site 1215088010682 ABC transporter signature motif; other site 1215088010683 Walker B; other site 1215088010684 D-loop; other site 1215088010685 H-loop/switch region; other site 1215088010686 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1215088010687 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1215088010688 Walker A/P-loop; other site 1215088010689 ATP binding site [chemical binding]; other site 1215088010690 Q-loop/lid; other site 1215088010691 ABC transporter signature motif; other site 1215088010692 Walker B; other site 1215088010693 D-loop; other site 1215088010694 H-loop/switch region; other site 1215088010695 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1215088010696 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088010697 DNA binding domain, excisionase family; Region: excise; TIGR01764 1215088010698 PIN domain; Region: PIN_3; pfam13470 1215088010699 hypothetical protein; Provisional; Region: PRK06149 1215088010700 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 1215088010701 active site 1215088010702 ATP binding site [chemical binding]; other site 1215088010703 substrate binding site [chemical binding]; other site 1215088010704 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 1215088010705 inhibitor-cofactor binding pocket; inhibition site 1215088010706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088010707 catalytic residue [active] 1215088010708 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088010709 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088010710 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 1215088010711 dimerization interface [polypeptide binding]; other site 1215088010712 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1215088010713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088010714 active site 1215088010715 phosphorylation site [posttranslational modification] 1215088010716 intermolecular recognition site; other site 1215088010717 dimerization interface [polypeptide binding]; other site 1215088010718 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 1215088010719 DNA binding site [nucleotide binding] 1215088010720 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1215088010721 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1215088010722 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 1215088010723 Ligand Binding Site [chemical binding]; other site 1215088010724 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1215088010725 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 1215088010726 dimer interface [polypeptide binding]; other site 1215088010727 phosphorylation site [posttranslational modification] 1215088010728 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 1215088010729 ATP binding site [chemical binding]; other site 1215088010730 Mg2+ binding site [ion binding]; other site 1215088010731 G-X-G motif; other site 1215088010732 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1215088010733 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1215088010734 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1215088010735 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1215088010736 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1215088010737 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1215088010738 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1215088010739 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1215088010740 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1215088010741 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1215088010742 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 1215088010743 catalytic core [active] 1215088010744 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 1215088010745 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1215088010746 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1215088010747 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1215088010748 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1215088010749 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 1215088010750 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 1215088010751 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 1215088010752 dimerization interface [polypeptide binding]; other site 1215088010753 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 1215088010754 dimer interface [polypeptide binding]; other site 1215088010755 phosphorylation site [posttranslational modification] 1215088010756 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 1215088010757 ATP binding site [chemical binding]; other site 1215088010758 Mg2+ binding site [ion binding]; other site 1215088010759 G-X-G motif; other site 1215088010760 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088010761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088010762 active site 1215088010763 phosphorylation site [posttranslational modification] 1215088010764 intermolecular recognition site; other site 1215088010765 dimerization interface [polypeptide binding]; other site 1215088010766 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 1215088010767 active site 1 [active] 1215088010768 dimer interface [polypeptide binding]; other site 1215088010769 active site 2 [active] 1215088010770 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1215088010771 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 1215088010772 dimer interface [polypeptide binding]; other site 1215088010773 active site 1215088010774 Amidohydrolase; Region: Amidohydro_2; pfam04909 1215088010775 Pirin-related protein [General function prediction only]; Region: COG1741 1215088010776 Pirin; Region: Pirin; pfam02678 1215088010777 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1215088010778 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1215088010779 heat shock protein 90; Provisional; Region: PRK05218 1215088010780 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 1215088010781 ATP binding site [chemical binding]; other site 1215088010782 Mg2+ binding site [ion binding]; other site 1215088010783 G-X-G motif; other site 1215088010784 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 1215088010785 CoenzymeA binding site [chemical binding]; other site 1215088010786 subunit interaction site [polypeptide binding]; other site 1215088010787 PHB binding site; other site 1215088010788 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 1215088010789 CoenzymeA binding site [chemical binding]; other site 1215088010790 subunit interaction site [polypeptide binding]; other site 1215088010791 PHB binding site; other site 1215088010792 Predicted membrane protein [Function unknown]; Region: COG3821 1215088010793 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1215088010794 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1215088010795 CoA binding domain; Region: CoA_binding; pfam02629 1215088010796 CoA-ligase; Region: Ligase_CoA; pfam00549 1215088010797 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1215088010798 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1215088010799 CoA-ligase; Region: Ligase_CoA; pfam00549 1215088010800 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1215088010801 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1215088010802 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088010803 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1215088010804 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1215088010805 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 1215088010806 E3 interaction surface; other site 1215088010807 lipoyl attachment site [posttranslational modification]; other site 1215088010808 e3 binding domain; Region: E3_binding; pfam02817 1215088010809 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1215088010810 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1215088010811 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 1215088010812 TPP-binding site [chemical binding]; other site 1215088010813 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1215088010814 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1215088010815 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1215088010816 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 1215088010817 L-aspartate oxidase; Provisional; Region: PRK06175 1215088010818 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1215088010819 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 1215088010820 SdhC subunit interface [polypeptide binding]; other site 1215088010821 proximal heme binding site [chemical binding]; other site 1215088010822 cardiolipin binding site; other site 1215088010823 Iron-sulfur protein interface; other site 1215088010824 proximal quinone binding site [chemical binding]; other site 1215088010825 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 1215088010826 Iron-sulfur protein interface; other site 1215088010827 proximal quinone binding site [chemical binding]; other site 1215088010828 SdhD (CybS) interface [polypeptide binding]; other site 1215088010829 proximal heme binding site [chemical binding]; other site 1215088010830 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 1215088010831 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1215088010832 dimer interface [polypeptide binding]; other site 1215088010833 active site 1215088010834 citrylCoA binding site [chemical binding]; other site 1215088010835 NADH binding [chemical binding]; other site 1215088010836 cationic pore residues; other site 1215088010837 oxalacetate/citrate binding site [chemical binding]; other site 1215088010838 coenzyme A binding site [chemical binding]; other site 1215088010839 catalytic triad [active] 1215088010840 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1215088010841 putative lipid binding site [chemical binding]; other site 1215088010842 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 1215088010843 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088010844 DNA-binding site [nucleotide binding]; DNA binding site 1215088010845 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 1215088010846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088010847 homodimer interface [polypeptide binding]; other site 1215088010848 catalytic residue [active] 1215088010849 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1215088010850 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088010851 ligand binding site [chemical binding]; other site 1215088010852 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1215088010853 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 1215088010854 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088010855 substrate binding pocket [chemical binding]; other site 1215088010856 membrane-bound complex binding site; other site 1215088010857 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1215088010858 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 1215088010859 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1215088010860 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 1215088010861 Ligand binding site [chemical binding]; other site 1215088010862 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1215088010863 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1215088010864 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1215088010865 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1215088010866 metabolite-proton symporter; Region: 2A0106; TIGR00883 1215088010867 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 1215088010868 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1215088010869 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088010870 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 1215088010871 DNA binding residues [nucleotide binding] 1215088010872 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1215088010873 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088010874 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088010875 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1215088010876 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1215088010877 Walker A/P-loop; other site 1215088010878 ATP binding site [chemical binding]; other site 1215088010879 Q-loop/lid; other site 1215088010880 ABC transporter signature motif; other site 1215088010881 Walker B; other site 1215088010882 D-loop; other site 1215088010883 H-loop/switch region; other site 1215088010884 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1215088010885 FtsX-like permease family; Region: FtsX; pfam02687 1215088010886 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1215088010887 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1215088010888 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1215088010889 active site 1215088010890 dimer interface [polypeptide binding]; other site 1215088010891 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1215088010892 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 1215088010893 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1215088010894 catalytic residue [active] 1215088010895 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1215088010896 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1215088010897 substrate binding pocket [chemical binding]; other site 1215088010898 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1215088010899 Cupin-like domain; Region: Cupin_8; pfam13621 1215088010900 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 1215088010901 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 1215088010902 inhibitor-cofactor binding pocket; inhibition site 1215088010903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088010904 catalytic residue [active] 1215088010905 sensor protein QseC; Provisional; Region: PRK10337 1215088010906 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 1215088010907 dimer interface [polypeptide binding]; other site 1215088010908 phosphorylation site [posttranslational modification] 1215088010909 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 1215088010910 ATP binding site [chemical binding]; other site 1215088010911 G-X-G motif; other site 1215088010912 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1215088010913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088010914 active site 1215088010915 phosphorylation site [posttranslational modification] 1215088010916 intermolecular recognition site; other site 1215088010917 dimerization interface [polypeptide binding]; other site 1215088010918 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 1215088010919 DNA binding site [nucleotide binding] 1215088010920 GAD-like domain; Region: GAD-like; pfam08887 1215088010921 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 1215088010922 GAD-like domain; Region: GAD-like; pfam08887 1215088010923 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 1215088010924 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1215088010925 Ligand binding site; other site 1215088010926 metal-binding site 1215088010927 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1215088010928 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1215088010929 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1215088010930 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1215088010931 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1215088010932 Cytochrome c; Region: Cytochrom_C; pfam00034 1215088010933 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1215088010934 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 1215088010935 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1215088010936 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1215088010937 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1215088010938 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1215088010939 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1215088010940 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1215088010941 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 1215088010942 DsbD alpha interface [polypeptide binding]; other site 1215088010943 catalytic residues [active] 1215088010944 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1215088010945 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 1215088010946 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1215088010947 catalytic residues [active] 1215088010948 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1215088010949 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 1215088010950 dimerization domain [polypeptide binding]; other site 1215088010951 dimer interface [polypeptide binding]; other site 1215088010952 catalytic residues [active] 1215088010953 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1215088010954 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088010955 Walker A/P-loop; other site 1215088010956 ATP binding site [chemical binding]; other site 1215088010957 Q-loop/lid; other site 1215088010958 ABC transporter signature motif; other site 1215088010959 Walker B; other site 1215088010960 D-loop; other site 1215088010961 H-loop/switch region; other site 1215088010962 peptide synthase; Validated; Region: PRK05691 1215088010963 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1215088010964 acyl-activating enzyme (AAE) consensus motif; other site 1215088010965 active site 1215088010966 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088010967 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1215088010968 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1215088010969 acyl-activating enzyme (AAE) consensus motif; other site 1215088010970 AMP binding site [chemical binding]; other site 1215088010971 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088010972 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1215088010973 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1215088010974 acyl-activating enzyme (AAE) consensus motif; other site 1215088010975 AMP binding site [chemical binding]; other site 1215088010976 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088010977 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1215088010978 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1215088010979 acyl-activating enzyme (AAE) consensus motif; other site 1215088010980 AMP binding site [chemical binding]; other site 1215088010981 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088010982 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1215088010983 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088010984 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 1215088010985 DNA binding residues [nucleotide binding] 1215088010986 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1215088010987 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1215088010988 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1215088010989 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 1215088010990 substrate binding pocket [chemical binding]; other site 1215088010991 membrane-bound complex binding site; other site 1215088010992 hinge residues; other site 1215088010993 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1215088010994 active site 1215088010995 catalytic site [active] 1215088010996 substrate binding site [chemical binding]; other site 1215088010997 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1215088010998 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1215088010999 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 1215088011000 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1215088011001 Low-spin heme binding site [chemical binding]; other site 1215088011002 Putative water exit pathway; other site 1215088011003 Binuclear center (active site) [active] 1215088011004 Putative proton exit pathway; other site 1215088011005 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1215088011006 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1215088011007 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 1215088011008 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1215088011009 Cytochrome c; Region: Cytochrom_C; pfam00034 1215088011010 Cytochrome c; Region: Cytochrom_C; pfam00034 1215088011011 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 1215088011012 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1215088011013 Low-spin heme binding site [chemical binding]; other site 1215088011014 Putative water exit pathway; other site 1215088011015 Binuclear center (active site) [active] 1215088011016 Putative proton exit pathway; other site 1215088011017 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1215088011018 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1215088011019 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 1215088011020 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1215088011021 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1215088011022 Cytochrome c; Region: Cytochrom_C; pfam00034 1215088011023 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1215088011024 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1215088011025 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1215088011026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1215088011027 FixH; Region: FixH; pfam05751 1215088011028 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1215088011029 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1215088011030 Heavy-metal-associated domain; Region: HMA; pfam00403 1215088011031 metal-binding site [ion binding] 1215088011032 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1215088011033 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1215088011034 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1215088011035 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1215088011036 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1215088011037 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 1215088011038 FeS/SAM binding site; other site 1215088011039 HemN C-terminal domain; Region: HemN_C; pfam06969 1215088011040 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1215088011041 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 1215088011042 ligand binding site [chemical binding]; other site 1215088011043 flexible hinge region; other site 1215088011044 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 1215088011045 putative switch regulator; other site 1215088011046 non-specific DNA interactions [nucleotide binding]; other site 1215088011047 DNA binding site [nucleotide binding] 1215088011048 sequence specific DNA binding site [nucleotide binding]; other site 1215088011049 putative cAMP binding site [chemical binding]; other site 1215088011050 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1215088011051 active site 1215088011052 recombination protein RecR; Reviewed; Region: recR; PRK00076 1215088011053 RecR protein; Region: RecR; pfam02132 1215088011054 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 1215088011055 putative active site [active] 1215088011056 putative metal-binding site [ion binding]; other site 1215088011057 tetramer interface [polypeptide binding]; other site 1215088011058 hypothetical protein; Validated; Region: PRK00153 1215088011059 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1215088011060 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 1215088011061 Walker A motif; other site 1215088011062 ATP binding site [chemical binding]; other site 1215088011063 Walker B motif; other site 1215088011064 arginine finger; other site 1215088011065 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1215088011066 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088011067 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 1215088011068 substrate binding pocket [chemical binding]; other site 1215088011069 membrane-bound complex binding site; other site 1215088011070 hinge residues; other site 1215088011071 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1215088011072 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1215088011073 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1215088011074 DNA binding residues [nucleotide binding] 1215088011075 putative dimer interface [polypeptide binding]; other site 1215088011076 putative metal binding residues [ion binding]; other site 1215088011077 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1215088011078 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 1215088011079 nucleotide binding pocket [chemical binding]; other site 1215088011080 K-X-D-G motif; other site 1215088011081 catalytic site [active] 1215088011082 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1215088011083 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1215088011084 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 1215088011085 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 1215088011086 Dimer interface [polypeptide binding]; other site 1215088011087 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 1215088011088 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 1215088011089 FtsZ protein binding site [polypeptide binding]; other site 1215088011090 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1215088011091 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1215088011092 Walker A/P-loop; other site 1215088011093 ATP binding site [chemical binding]; other site 1215088011094 Q-loop/lid; other site 1215088011095 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1215088011096 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1215088011097 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1215088011098 ABC transporter signature motif; other site 1215088011099 Walker B; other site 1215088011100 D-loop; other site 1215088011101 H-loop/switch region; other site 1215088011102 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1215088011103 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088011104 DNA-binding site [nucleotide binding]; DNA binding site 1215088011105 FCD domain; Region: FCD; pfam07729 1215088011106 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1215088011107 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 1215088011108 catalytic loop [active] 1215088011109 iron binding site [ion binding]; other site 1215088011110 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1215088011111 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1215088011112 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1215088011113 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1215088011114 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1215088011115 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1215088011116 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1215088011117 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1215088011118 guanine deaminase; Provisional; Region: PRK09228 1215088011119 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 1215088011120 active site 1215088011121 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 1215088011122 amphipathic channel; other site 1215088011123 Asn-Pro-Ala signature motifs; other site 1215088011124 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1215088011125 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088011126 DNA-binding site [nucleotide binding]; DNA binding site 1215088011127 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1215088011128 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1215088011129 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088011130 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 1215088011131 active site 1215088011132 homotetramer interface [polypeptide binding]; other site 1215088011133 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1215088011134 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1215088011135 active site 1215088011136 catalytic site [active] 1215088011137 tetramer interface [polypeptide binding]; other site 1215088011138 OHCU decarboxylase; Region: UHCUDC; TIGR03164 1215088011139 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1215088011140 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1215088011141 Predicted membrane protein [Function unknown]; Region: COG3748 1215088011142 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1215088011143 Cytochrome c; Region: Cytochrom_C; pfam00034 1215088011144 xanthine permease; Region: pbuX; TIGR03173 1215088011145 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1215088011146 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1215088011147 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1215088011148 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1215088011149 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088011150 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1215088011151 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1215088011152 glyoxylate carboligase; Provisional; Region: PRK11269 1215088011153 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1215088011154 PYR/PP interface [polypeptide binding]; other site 1215088011155 dimer interface [polypeptide binding]; other site 1215088011156 TPP binding site [chemical binding]; other site 1215088011157 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1215088011158 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 1215088011159 TPP-binding site [chemical binding]; other site 1215088011160 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1215088011161 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1215088011162 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1215088011163 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1215088011164 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1215088011165 MOFRL family; Region: MOFRL; pfam05161 1215088011166 pyruvate kinase; Provisional; Region: PRK06247 1215088011167 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 1215088011168 domain interfaces; other site 1215088011169 active site 1215088011170 Urea transporter; Region: UT; pfam03253 1215088011171 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1215088011172 Ion transport protein; Region: Ion_trans; pfam00520 1215088011173 Ion channel; Region: Ion_trans_2; pfam07885 1215088011174 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1215088011175 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1215088011176 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1215088011177 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 1215088011178 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1215088011179 EamA-like transporter family; Region: EamA; pfam00892 1215088011180 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1215088011181 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 1215088011182 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088011183 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1215088011184 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1215088011185 Na binding site [ion binding]; other site 1215088011186 putative substrate binding site [chemical binding]; other site 1215088011187 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1215088011188 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1215088011189 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1215088011190 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1215088011191 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1215088011192 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1215088011193 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1215088011194 NAD binding site [chemical binding]; other site 1215088011195 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1215088011196 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1215088011197 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 1215088011198 binding surface 1215088011199 TPR motif; other site 1215088011200 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1215088011201 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 1215088011202 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1215088011203 catalytic residues [active] 1215088011204 central insert; other site 1215088011205 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1215088011206 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1215088011207 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1215088011208 heme exporter protein CcmC; Region: ccmC; TIGR01191 1215088011209 heme exporter protein CcmB; Region: ccmB; TIGR01190 1215088011210 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1215088011211 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1215088011212 Walker A/P-loop; other site 1215088011213 ATP binding site [chemical binding]; other site 1215088011214 Q-loop/lid; other site 1215088011215 ABC transporter signature motif; other site 1215088011216 Walker B; other site 1215088011217 D-loop; other site 1215088011218 H-loop/switch region; other site 1215088011219 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1215088011220 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1215088011221 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1215088011222 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1215088011223 conserved cys residue [active] 1215088011224 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088011225 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1215088011226 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1215088011227 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 1215088011228 homodimer interface [polypeptide binding]; other site 1215088011229 substrate-cofactor binding pocket; other site 1215088011230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088011231 catalytic residue [active] 1215088011232 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088011233 putative substrate translocation pore; other site 1215088011234 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088011235 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1215088011236 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1215088011237 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1215088011238 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1215088011239 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1215088011240 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1215088011241 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 1215088011242 putative CheA interaction surface; other site 1215088011243 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 1215088011244 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1215088011245 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 1215088011246 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 1215088011247 Magnesium ion binding site [ion binding]; other site 1215088011248 flagellar motor protein MotD; Reviewed; Region: PRK09038 1215088011249 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1215088011250 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088011251 ligand binding site [chemical binding]; other site 1215088011252 flagellar motor protein; Reviewed; Region: motC; PRK09109 1215088011253 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1215088011254 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1215088011255 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088011256 active site 1215088011257 phosphorylation site [posttranslational modification] 1215088011258 intermolecular recognition site; other site 1215088011259 dimerization interface [polypeptide binding]; other site 1215088011260 CheB methylesterase; Region: CheB_methylest; pfam01339 1215088011261 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 1215088011262 putative binding surface; other site 1215088011263 active site 1215088011264 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1215088011265 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1215088011266 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 1215088011267 ATP binding site [chemical binding]; other site 1215088011268 Mg2+ binding site [ion binding]; other site 1215088011269 G-X-G motif; other site 1215088011270 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 1215088011271 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 1215088011272 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1215088011273 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088011274 active site 1215088011275 phosphorylation site [posttranslational modification] 1215088011276 intermolecular recognition site; other site 1215088011277 dimerization interface [polypeptide binding]; other site 1215088011278 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1215088011279 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088011280 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1215088011281 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 1215088011282 DNA binding residues [nucleotide binding] 1215088011283 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1215088011284 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 1215088011285 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 1215088011286 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 1215088011287 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1215088011288 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 1215088011289 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1215088011290 FHIPEP family; Region: FHIPEP; pfam00771 1215088011291 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1215088011292 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1215088011293 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1215088011294 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1215088011295 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1215088011296 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1215088011297 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1215088011298 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1215088011299 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1215088011300 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1215088011301 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 1215088011302 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1215088011303 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 1215088011304 putative binding surface; other site 1215088011305 active site 1215088011306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088011307 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1215088011308 active site 1215088011309 phosphorylation site [posttranslational modification] 1215088011310 intermolecular recognition site; other site 1215088011311 dimerization interface [polypeptide binding]; other site 1215088011312 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1215088011313 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1215088011314 ATP binding site [chemical binding]; other site 1215088011315 Mg2+ binding site [ion binding]; other site 1215088011316 G-X-G motif; other site 1215088011317 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 1215088011318 anti sigma factor interaction site; other site 1215088011319 regulatory phosphorylation site [posttranslational modification]; other site 1215088011320 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1215088011321 Flagellar FliJ protein; Region: FliJ; pfam02050 1215088011322 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 1215088011323 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 1215088011324 Walker A motif/ATP binding site; other site 1215088011325 Walker B motif; other site 1215088011326 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1215088011327 Flagellar assembly protein FliH; Region: FliH; pfam02108 1215088011328 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1215088011329 MgtE intracellular N domain; Region: MgtE_N; cl15244 1215088011330 FliG C-terminal domain; Region: FliG_C; pfam01706 1215088011331 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1215088011332 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1215088011333 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1215088011334 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1215088011335 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1215088011336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088011337 active site 1215088011338 phosphorylation site [posttranslational modification] 1215088011339 intermolecular recognition site; other site 1215088011340 dimerization interface [polypeptide binding]; other site 1215088011341 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 1215088011342 Walker A motif; other site 1215088011343 ATP binding site [chemical binding]; other site 1215088011344 Walker B motif; other site 1215088011345 arginine finger; other site 1215088011346 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1215088011347 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 1215088011348 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1215088011349 putative active site [active] 1215088011350 heme pocket [chemical binding]; other site 1215088011351 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 1215088011352 dimer interface [polypeptide binding]; other site 1215088011353 phosphorylation site [posttranslational modification] 1215088011354 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 1215088011355 ATP binding site [chemical binding]; other site 1215088011356 Mg2+ binding site [ion binding]; other site 1215088011357 G-X-G motif; other site 1215088011358 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1215088011359 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1215088011360 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 1215088011361 Walker A motif; other site 1215088011362 ATP binding site [chemical binding]; other site 1215088011363 Walker B motif; other site 1215088011364 arginine finger; other site 1215088011365 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088011366 flagellar protein FliS; Validated; Region: fliS; PRK05685 1215088011367 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1215088011368 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1215088011369 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1215088011370 FlaG protein; Region: FlaG; pfam03646 1215088011371 flagellin; Provisional; Region: PRK12802 1215088011372 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1215088011373 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1215088011374 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 1215088011375 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1215088011376 dimer interface [polypeptide binding]; other site 1215088011377 active site 1215088011378 CoA binding pocket [chemical binding]; other site 1215088011379 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 1215088011380 active site 1215088011381 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1215088011382 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 1215088011383 inhibitor-cofactor binding pocket; inhibition site 1215088011384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088011385 catalytic residue [active] 1215088011386 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1215088011387 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1215088011388 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1215088011389 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 1215088011390 S-adenosylmethionine binding site [chemical binding]; other site 1215088011391 WbqC-like protein family; Region: WbqC; pfam08889 1215088011392 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 1215088011393 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1215088011394 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 1215088011395 active site 1215088011396 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1215088011397 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 1215088011398 active site 1215088011399 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 1215088011400 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1215088011401 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 1215088011402 active site 1215088011403 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1215088011404 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1215088011405 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 1215088011406 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1215088011407 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1215088011408 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 1215088011409 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1215088011410 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1215088011411 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1215088011412 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1215088011413 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1215088011414 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1215088011415 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1215088011416 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1215088011417 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1215088011418 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1215088011419 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1215088011420 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1215088011421 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1215088011422 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1215088011423 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1215088011424 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1215088011425 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1215088011426 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1215088011427 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1215088011428 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1215088011429 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1215088011430 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1215088011431 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1215088011432 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1215088011433 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1215088011434 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1215088011435 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1215088011436 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1215088011437 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 1215088011438 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1215088011439 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088011440 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088011441 active site 1215088011442 phosphorylation site [posttranslational modification] 1215088011443 intermolecular recognition site; other site 1215088011444 dimerization interface [polypeptide binding]; other site 1215088011445 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1215088011446 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1215088011447 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 1215088011448 FlgN protein; Region: FlgN; pfam05130 1215088011449 Flagellar regulator YcgR; Region: YcgR; pfam07317 1215088011450 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1215088011451 PilZ domain; Region: PilZ; pfam07238 1215088011452 putative MFS family transporter protein; Provisional; Region: PRK03633 1215088011453 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088011454 putative substrate translocation pore; other site 1215088011455 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1215088011456 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1215088011457 putative DNA binding site [nucleotide binding]; other site 1215088011458 putative Zn2+ binding site [ion binding]; other site 1215088011459 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088011460 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1215088011461 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1215088011462 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 1215088011463 tetramer interface [polypeptide binding]; other site 1215088011464 TPP-binding site [chemical binding]; other site 1215088011465 heterodimer interface [polypeptide binding]; other site 1215088011466 phosphorylation loop region [posttranslational modification] 1215088011467 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1215088011468 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 1215088011469 alpha subunit interface [polypeptide binding]; other site 1215088011470 TPP binding site [chemical binding]; other site 1215088011471 heterodimer interface [polypeptide binding]; other site 1215088011472 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1215088011473 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1215088011474 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 1215088011475 E3 interaction surface; other site 1215088011476 lipoyl attachment site [posttranslational modification]; other site 1215088011477 e3 binding domain; Region: E3_binding; pfam02817 1215088011478 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1215088011479 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1215088011480 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088011481 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1215088011482 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 1215088011483 PAS fold; Region: PAS_3; pfam08447 1215088011484 putative active site [active] 1215088011485 heme pocket [chemical binding]; other site 1215088011486 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088011487 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088011488 metal binding site [ion binding]; metal-binding site 1215088011489 active site 1215088011490 I-site; other site 1215088011491 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088011492 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088011493 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 1215088011494 dimerization interface [polypeptide binding]; other site 1215088011495 AzlC protein; Region: AzlC; pfam03591 1215088011496 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1215088011497 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 1215088011498 Arc-like DNA binding domain; Region: Arc; pfam03869 1215088011499 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1215088011500 MgtE intracellular N domain; Region: MgtE_N; smart00924 1215088011501 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 1215088011502 Divalent cation transporter; Region: MgtE; cl00786 1215088011503 carbon storage regulator; Provisional; Region: PRK01712 1215088011504 aspartate kinase; Reviewed; Region: PRK06635 1215088011505 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 1215088011506 putative nucleotide binding site [chemical binding]; other site 1215088011507 putative catalytic residues [active] 1215088011508 putative Mg ion binding site [ion binding]; other site 1215088011509 putative aspartate binding site [chemical binding]; other site 1215088011510 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 1215088011511 putative allosteric regulatory site; other site 1215088011512 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 1215088011513 putative allosteric regulatory residue; other site 1215088011514 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1215088011515 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 1215088011516 motif 1; other site 1215088011517 active site 1215088011518 motif 2; other site 1215088011519 motif 3; other site 1215088011520 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1215088011521 DHHA1 domain; Region: DHHA1; pfam02272 1215088011522 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1215088011523 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1215088011524 putative active site [active] 1215088011525 Zn binding site [ion binding]; other site 1215088011526 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 1215088011527 succinylarginine dihydrolase; Provisional; Region: PRK13281 1215088011528 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1215088011529 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1215088011530 NAD(P) binding site [chemical binding]; other site 1215088011531 catalytic residues [active] 1215088011532 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1215088011533 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 1215088011534 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1215088011535 arginine/ornithine succinyltransferase, alpha subunit; Region: arg_AOST_alph; TIGR03245 1215088011536 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1215088011537 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 1215088011538 inhibitor-cofactor binding pocket; inhibition site 1215088011539 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088011540 catalytic residue [active] 1215088011541 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1215088011542 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1215088011543 conserved cys residue [active] 1215088011544 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088011545 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088011546 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1215088011547 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1215088011548 Walker A/P-loop; other site 1215088011549 ATP binding site [chemical binding]; other site 1215088011550 Q-loop/lid; other site 1215088011551 ABC transporter signature motif; other site 1215088011552 Walker B; other site 1215088011553 D-loop; other site 1215088011554 H-loop/switch region; other site 1215088011555 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 1215088011556 dimer interface [polypeptide binding]; other site 1215088011557 conserved gate region; other site 1215088011558 putative PBP binding loops; other site 1215088011559 ABC-ATPase subunit interface; other site 1215088011560 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088011561 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 1215088011562 dimer interface [polypeptide binding]; other site 1215088011563 conserved gate region; other site 1215088011564 putative PBP binding loops; other site 1215088011565 ABC-ATPase subunit interface; other site 1215088011566 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1215088011567 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 1215088011568 substrate binding pocket [chemical binding]; other site 1215088011569 membrane-bound complex binding site; other site 1215088011570 hinge residues; other site 1215088011571 acetyl-CoA synthetase; Provisional; Region: PRK00174 1215088011572 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1215088011573 active site 1215088011574 CoA binding site [chemical binding]; other site 1215088011575 acyl-activating enzyme (AAE) consensus motif; other site 1215088011576 AMP binding site [chemical binding]; other site 1215088011577 acetate binding site [chemical binding]; other site 1215088011578 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1215088011579 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1215088011580 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1215088011581 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 1215088011582 putative active site [active] 1215088011583 heme pocket [chemical binding]; other site 1215088011584 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 1215088011585 Walker A motif; other site 1215088011586 ATP binding site [chemical binding]; other site 1215088011587 Walker B motif; other site 1215088011588 arginine finger; other site 1215088011589 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 1215088011590 cofactor binding site; other site 1215088011591 metal binding site [ion binding]; metal-binding site 1215088011592 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 1215088011593 aromatic arch; other site 1215088011594 DCoH dimer interaction site [polypeptide binding]; other site 1215088011595 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1215088011596 DCoH tetramer interaction site [polypeptide binding]; other site 1215088011597 substrate binding site [chemical binding]; other site 1215088011598 major facilitator superfamily transporter; Provisional; Region: PRK05122 1215088011599 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088011600 putative substrate translocation pore; other site 1215088011601 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1215088011602 FAD binding domain; Region: FAD_binding_4; pfam01565 1215088011603 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1215088011604 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1215088011605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088011606 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 1215088011607 dimerization interface [polypeptide binding]; other site 1215088011608 aromatic amino acid transporter; Provisional; Region: PRK10238 1215088011609 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1215088011610 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 1215088011611 RNA binding surface [nucleotide binding]; other site 1215088011612 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1215088011613 probable active site [active] 1215088011614 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1215088011615 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1215088011616 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1215088011617 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1215088011618 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1215088011619 active site 1215088011620 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1215088011621 intracellular septation protein A; Reviewed; Region: PRK00259 1215088011622 YciI-like protein; Reviewed; Region: PRK11370 1215088011623 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1215088011624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088011625 active site 1215088011626 phosphorylation site [posttranslational modification] 1215088011627 intermolecular recognition site; other site 1215088011628 dimerization interface [polypeptide binding]; other site 1215088011629 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 1215088011630 DNA binding site [nucleotide binding] 1215088011631 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1215088011632 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1215088011633 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 1215088011634 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 1215088011635 ATP binding site [chemical binding]; other site 1215088011636 Mg2+ binding site [ion binding]; other site 1215088011637 G-X-G motif; other site 1215088011638 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 1215088011639 putative FMN binding site [chemical binding]; other site 1215088011640 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1215088011641 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1215088011642 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1215088011643 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088011644 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088011645 Protein of unknown function (DUF962); Region: DUF962; cl01879 1215088011646 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1215088011647 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1215088011648 putative active site [active] 1215088011649 putative metal binding site [ion binding]; other site 1215088011650 Cupin domain; Region: Cupin_2; pfam07883 1215088011651 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088011652 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088011653 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088011654 EamA-like transporter family; Region: EamA; pfam00892 1215088011655 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 1215088011656 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1215088011657 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1215088011658 active site 1215088011659 nucleophile elbow; other site 1215088011660 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1215088011661 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1215088011662 Surface antigen; Region: Bac_surface_Ag; pfam01103 1215088011663 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1215088011664 MarR family; Region: MarR_2; pfam12802 1215088011665 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1215088011666 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 1215088011667 ATP binding site [chemical binding]; other site 1215088011668 putative Mg++ binding site [ion binding]; other site 1215088011669 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 1215088011670 nucleotide binding region [chemical binding]; other site 1215088011671 ATP-binding site [chemical binding]; other site 1215088011672 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1215088011673 HRDC domain; Region: HRDC; pfam00570 1215088011674 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 1215088011675 yecA family protein; Region: ygfB_yecA; TIGR02292 1215088011676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1215088011677 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1215088011678 DTW domain; Region: DTW; cl01221 1215088011679 PAS domain; Region: PAS_9; pfam13426 1215088011680 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 1215088011681 putative active site [active] 1215088011682 heme pocket [chemical binding]; other site 1215088011683 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1215088011684 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088011685 dimer interface [polypeptide binding]; other site 1215088011686 putative CheW interface [polypeptide binding]; other site 1215088011687 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088011688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088011689 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 1215088011690 dimerization interface [polypeptide binding]; other site 1215088011691 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1215088011692 agmatinase; Region: agmatinase; TIGR01230 1215088011693 oligomer interface [polypeptide binding]; other site 1215088011694 putative active site [active] 1215088011695 Mn binding site [ion binding]; other site 1215088011696 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 1215088011697 Na binding site [ion binding]; other site 1215088011698 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088011699 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088011700 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 1215088011701 putative dimerization interface [polypeptide binding]; other site 1215088011702 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088011703 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1215088011704 EamA-like transporter family; Region: EamA; pfam00892 1215088011705 helicase 45; Provisional; Region: PTZ00424 1215088011706 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 1215088011707 ATP binding site [chemical binding]; other site 1215088011708 Mg++ binding site [ion binding]; other site 1215088011709 motif III; other site 1215088011710 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 1215088011711 nucleotide binding region [chemical binding]; other site 1215088011712 ATP-binding site [chemical binding]; other site 1215088011713 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1215088011714 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1215088011715 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1215088011716 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1215088011717 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1215088011718 azoreductase; Reviewed; Region: PRK00170 1215088011719 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1215088011720 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 1215088011721 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088011722 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088011723 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1215088011724 dimerization interface [polypeptide binding]; other site 1215088011725 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1215088011726 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1215088011727 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1215088011728 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1215088011729 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 1215088011730 substrate binding site [chemical binding]; other site 1215088011731 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1215088011732 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1215088011733 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1215088011734 Walker A/P-loop; other site 1215088011735 ATP binding site [chemical binding]; other site 1215088011736 Q-loop/lid; other site 1215088011737 ABC transporter signature motif; other site 1215088011738 Walker B; other site 1215088011739 D-loop; other site 1215088011740 H-loop/switch region; other site 1215088011741 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1215088011742 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1215088011743 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1215088011744 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 1215088011745 dimer interface [polypeptide binding]; other site 1215088011746 active site 1215088011747 CoA binding pocket [chemical binding]; other site 1215088011748 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1215088011749 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 1215088011750 ATP binding site [chemical binding]; other site 1215088011751 putative Mg++ binding site [ion binding]; other site 1215088011752 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 1215088011753 nucleotide binding region [chemical binding]; other site 1215088011754 ATP-binding site [chemical binding]; other site 1215088011755 Helicase associated domain (HA2); Region: HA2; pfam04408 1215088011756 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1215088011757 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1215088011758 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1215088011759 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1215088011760 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088011761 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088011762 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1215088011763 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1215088011764 acyl-activating enzyme (AAE) consensus motif; other site 1215088011765 putative AMP binding site [chemical binding]; other site 1215088011766 putative active site [active] 1215088011767 putative CoA binding site [chemical binding]; other site 1215088011768 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 1215088011769 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1215088011770 acyl-activating enzyme (AAE) consensus motif; other site 1215088011771 putative AMP binding site [chemical binding]; other site 1215088011772 putative active site [active] 1215088011773 putative CoA binding site [chemical binding]; other site 1215088011774 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1215088011775 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1215088011776 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1215088011777 (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 1215088011778 dimer interaction site [polypeptide binding]; other site 1215088011779 substrate-binding tunnel; other site 1215088011780 active site 1215088011781 catalytic site [active] 1215088011782 substrate binding site [chemical binding]; other site 1215088011783 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1215088011784 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088011785 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1215088011786 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 1215088011787 putative hydrophobic ligand binding site [chemical binding]; other site 1215088011788 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1215088011789 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1215088011790 SnoaL-like domain; Region: SnoaL_3; pfam13474 1215088011791 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1215088011792 HicB family; Region: HicB; pfam05534 1215088011793 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1215088011794 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088011795 Coenzyme A binding pocket [chemical binding]; other site 1215088011796 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 1215088011797 active site 1215088011798 catalytic residues [active] 1215088011799 metal binding site [ion binding]; metal-binding site 1215088011800 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1215088011801 CsbD-like; Region: CsbD; pfam05532 1215088011802 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1215088011803 S1 domain; Region: S1_2; pfam13509 1215088011804 S1 domain; Region: S1_2; pfam13509 1215088011805 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1215088011806 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1215088011807 EamA-like transporter family; Region: EamA; pfam00892 1215088011808 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 1215088011809 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1215088011810 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1215088011811 Secretin and TonB N terminus short domain; Region: STN; pfam07660 1215088011812 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1215088011813 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 1215088011814 N-terminal plug; other site 1215088011815 ligand-binding site [chemical binding]; other site 1215088011816 Condensation domain; Region: Condensation; pfam00668 1215088011817 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1215088011818 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1215088011819 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1215088011820 acyl-activating enzyme (AAE) consensus motif; other site 1215088011821 AMP binding site [chemical binding]; other site 1215088011822 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088011823 Condensation domain; Region: Condensation; pfam00668 1215088011824 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1215088011825 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1215088011826 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 1215088011827 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1215088011828 acyl-activating enzyme (AAE) consensus motif; other site 1215088011829 AMP binding site [chemical binding]; other site 1215088011830 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088011831 Condensation domain; Region: Condensation; pfam00668 1215088011832 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1215088011833 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1215088011834 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1215088011835 acyl-activating enzyme (AAE) consensus motif; other site 1215088011836 AMP binding site [chemical binding]; other site 1215088011837 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088011838 Condensation domain; Region: Condensation; pfam00668 1215088011839 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1215088011840 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1215088011841 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1215088011842 acyl-activating enzyme (AAE) consensus motif; other site 1215088011843 AMP binding site [chemical binding]; other site 1215088011844 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088011845 Condensation domain; Region: Condensation; pfam00668 1215088011846 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1215088011847 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1215088011848 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Saframycin A gene cluster from Streptomyces lavendulae; Region: A_NRPS_Sfm_like; cd12115 1215088011849 acyl-activating enzyme (AAE) consensus motif; other site 1215088011850 AMP binding site [chemical binding]; other site 1215088011851 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088011852 Condensation domain; Region: Condensation; pfam00668 1215088011853 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1215088011854 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1215088011855 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1215088011856 acyl-activating enzyme (AAE) consensus motif; other site 1215088011857 AMP binding site [chemical binding]; other site 1215088011858 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088011859 Condensation domain; Region: Condensation; pfam00668 1215088011860 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1215088011861 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1215088011862 Condensation domain; Region: Condensation; pfam00668 1215088011863 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1215088011864 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1215088011865 acyl-activating enzyme (AAE) consensus motif; other site 1215088011866 AMP binding site [chemical binding]; other site 1215088011867 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088011868 Condensation domain; Region: Condensation; pfam00668 1215088011869 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1215088011870 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1215088011871 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1215088011872 acyl-activating enzyme (AAE) consensus motif; other site 1215088011873 AMP binding site [chemical binding]; other site 1215088011874 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088011875 Condensation domain; Region: Condensation; pfam00668 1215088011876 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1215088011877 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1215088011878 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1215088011879 acyl-activating enzyme (AAE) consensus motif; other site 1215088011880 AMP binding site [chemical binding]; other site 1215088011881 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1215088011882 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088011883 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1215088011884 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1215088011885 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 1215088011886 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1215088011887 hypothetical protein; Region: PHA02096 1215088011888 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1215088011889 Walker A/P-loop; other site 1215088011890 ATP binding site [chemical binding]; other site 1215088011891 Q-loop/lid; other site 1215088011892 ABC transporter signature motif; other site 1215088011893 Walker B; other site 1215088011894 D-loop; other site 1215088011895 H-loop/switch region; other site 1215088011896 Archaeal ATPase; Region: Arch_ATPase; pfam01637 1215088011897 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1215088011898 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1215088011899 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 1215088011900 dimer interface [polypeptide binding]; other site 1215088011901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088011902 catalytic residue [active] 1215088011903 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1215088011904 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1215088011905 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 1215088011906 Walker A motif; other site 1215088011907 ATP binding site [chemical binding]; other site 1215088011908 Walker B motif; other site 1215088011909 arginine finger; other site 1215088011910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1215088011911 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1215088011912 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1215088011913 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1215088011914 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1215088011915 putative active site [active] 1215088011916 benzoate transport; Region: 2A0115; TIGR00895 1215088011917 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088011918 putative substrate translocation pore; other site 1215088011919 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088011920 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088011921 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 1215088011922 dimerization interface [polypeptide binding]; other site 1215088011923 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1215088011924 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1215088011925 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 1215088011926 putative active site [active] 1215088011927 putative dimer interface [polypeptide binding]; other site 1215088011928 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1215088011929 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1215088011930 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 1215088011931 active site 1215088011932 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1215088011933 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1215088011934 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1215088011935 hypothetical protein; Provisional; Region: PRK05170 1215088011936 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 1215088011937 putative FMN binding site [chemical binding]; other site 1215088011938 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1215088011939 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1215088011940 NAD binding site [chemical binding]; other site 1215088011941 ligand binding site [chemical binding]; other site 1215088011942 catalytic site [active] 1215088011943 YcgL domain; Region: YcgL; pfam05166 1215088011944 ribonuclease D; Region: rnd; TIGR01388 1215088011945 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1215088011946 catalytic site [active] 1215088011947 putative active site [active] 1215088011948 putative substrate binding site [chemical binding]; other site 1215088011949 HRDC domain; Region: HRDC; pfam00570 1215088011950 putative metal dependent hydrolase; Provisional; Region: PRK11598 1215088011951 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1215088011952 Sulfatase; Region: Sulfatase; pfam00884 1215088011953 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 1215088011954 putative substrate binding pocket [chemical binding]; other site 1215088011955 trimer interface [polypeptide binding]; other site 1215088011956 Protein of unknown function (DUF465); Region: DUF465; pfam04325 1215088011957 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1215088011958 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 1215088011959 homodimer interface [polypeptide binding]; other site 1215088011960 substrate-cofactor binding pocket; other site 1215088011961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088011962 catalytic residue [active] 1215088011963 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1215088011964 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 1215088011965 putative DNA binding site [nucleotide binding]; other site 1215088011966 putative Zn2+ binding site [ion binding]; other site 1215088011967 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088011968 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1215088011969 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 1215088011970 putative molybdopterin cofactor binding site [chemical binding]; other site 1215088011971 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 1215088011972 putative molybdopterin cofactor binding site; other site 1215088011973 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1215088011974 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 1215088011975 FeS/SAM binding site; other site 1215088011976 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1215088011977 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1215088011978 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 1215088011979 MPT binding site; other site 1215088011980 trimer interface [polypeptide binding]; other site 1215088011981 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088011982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088011983 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 1215088011984 dimerization interface [polypeptide binding]; other site 1215088011985 PAS fold; Region: PAS_4; pfam08448 1215088011986 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1215088011987 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088011988 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1215088011989 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 1215088011990 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1215088011991 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1215088011992 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1215088011993 inhibitor site; inhibition site 1215088011994 active site 1215088011995 dimer interface [polypeptide binding]; other site 1215088011996 catalytic residue [active] 1215088011997 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1215088011998 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1215088011999 dimer interface [polypeptide binding]; other site 1215088012000 NADP binding site [chemical binding]; other site 1215088012001 catalytic residues [active] 1215088012002 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088012003 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1215088012004 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1215088012005 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 1215088012006 active site 1215088012007 FMN binding site [chemical binding]; other site 1215088012008 substrate binding site [chemical binding]; other site 1215088012009 homotetramer interface [polypeptide binding]; other site 1215088012010 catalytic residue [active] 1215088012011 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 1215088012012 dimerization interface [polypeptide binding]; other site 1215088012013 putative DNA binding site [nucleotide binding]; other site 1215088012014 putative Zn2+ binding site [ion binding]; other site 1215088012015 Predicted transcriptional regulator [Transcription]; Region: COG2345 1215088012016 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 1215088012017 putative DNA binding site [nucleotide binding]; other site 1215088012018 putative Zn2+ binding site [ion binding]; other site 1215088012019 malate:quinone oxidoreductase; Validated; Region: PRK05257 1215088012020 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1215088012021 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1215088012022 Proline racemase; Region: Pro_racemase; pfam05544 1215088012023 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 1215088012024 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1215088012025 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1215088012026 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1215088012027 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 1215088012028 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 1215088012029 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1215088012030 catalytic residue [active] 1215088012031 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1215088012032 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1215088012033 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 1215088012034 active site 1215088012035 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1215088012036 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 1215088012037 non-specific DNA binding site [nucleotide binding]; other site 1215088012038 Predicted transcriptional regulator [Transcription]; Region: COG2932 1215088012039 salt bridge; other site 1215088012040 sequence-specific DNA binding site [nucleotide binding]; other site 1215088012041 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 1215088012042 Catalytic site [active] 1215088012043 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; cl17315 1215088012044 DNA binding residues [nucleotide binding] 1215088012045 dimerization interface [polypeptide binding]; other site 1215088012046 Global regulator protein family; Region: CsrA; pfam02599 1215088012047 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 1215088012048 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1215088012049 active site 1215088012050 metal binding site [ion binding]; metal-binding site 1215088012051 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1215088012052 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1215088012053 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 1215088012054 active site 1215088012055 DNA binding site [nucleotide binding] 1215088012056 Int/Topo IB signature motif; other site 1215088012057 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1215088012058 active site 1215088012059 virion protein; Provisional; Region: V; PHA02564 1215088012060 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1215088012061 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1215088012062 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1215088012063 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1215088012064 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1215088012065 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 1215088012066 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 1215088012067 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1215088012068 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1215088012069 oligomerization interface [polypeptide binding]; other site 1215088012070 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1215088012071 Phage capsid family; Region: Phage_capsid; pfam05065 1215088012072 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 1215088012073 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1215088012074 Phage portal protein; Region: Phage_portal; pfam04860 1215088012075 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1215088012076 Terminase small subunit; Region: Terminase_2; cl01513 1215088012077 HNH endonuclease; Region: HNH_3; pfam13392 1215088012078 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 1215088012079 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 1215088012080 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1215088012081 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1215088012082 replicative DNA helicase; Region: DnaB; TIGR00665 1215088012083 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 1215088012084 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 1215088012085 Walker A motif; other site 1215088012086 Walker A motif; other site 1215088012087 ATP binding site [chemical binding]; other site 1215088012088 Walker B motif; other site 1215088012089 DNA binding loops [nucleotide binding] 1215088012090 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 1215088012091 Walker A motif; other site 1215088012092 ATP binding site [chemical binding]; other site 1215088012093 Walker B motif; other site 1215088012094 arginine finger; other site 1215088012095 ORF6N domain; Region: ORF6N; pfam10543 1215088012096 Protein of unknown function (DUF4090); Region: DUF4090; pfam13319 1215088012097 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 1215088012098 sequence-specific DNA binding site [nucleotide binding]; other site 1215088012099 salt bridge; other site 1215088012100 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 1215088012101 Catalytic site [active] 1215088012102 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 1215088012103 DNA binding residues [nucleotide binding] 1215088012104 dimerization interface [polypeptide binding]; other site 1215088012105 Global regulator protein family; Region: CsrA; pfam02599 1215088012106 Helix-turn-helix domain; Region: HTH_17; pfam12728 1215088012107 integrase; Provisional; Region: int; PHA02601 1215088012108 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 1215088012109 catalytic residues [active] 1215088012110 Int/Topo IB signature motif; other site 1215088012111 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1215088012112 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1215088012113 ATP binding site [chemical binding]; other site 1215088012114 active site 1215088012115 substrate binding site [chemical binding]; other site 1215088012116 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1215088012117 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1215088012118 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1215088012119 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1215088012120 dimer interface [polypeptide binding]; other site 1215088012121 active site 1215088012122 catalytic residue [active] 1215088012123 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1215088012124 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 1215088012125 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1215088012126 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1215088012127 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 1215088012128 catalytic triad [active] 1215088012129 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1215088012130 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1215088012131 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 1215088012132 CPxP motif; other site 1215088012133 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1215088012134 Peptidase family M48; Region: Peptidase_M48; cl12018 1215088012135 quinolinate synthetase; Provisional; Region: PRK09375 1215088012136 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1215088012137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1215088012138 Amino acid permease; Region: AA_permease_2; pfam13520 1215088012139 Cache domain; Region: Cache_1; pfam02743 1215088012140 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 1215088012141 dimerization interface [polypeptide binding]; other site 1215088012142 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088012143 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088012144 dimer interface [polypeptide binding]; other site 1215088012145 putative CheW interface [polypeptide binding]; other site 1215088012146 Cation efflux family; Region: Cation_efflux; cl00316 1215088012147 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 1215088012148 Ligand Binding Site [chemical binding]; other site 1215088012149 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 1215088012150 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1215088012151 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1215088012152 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 1215088012153 binding surface 1215088012154 TPR motif; other site 1215088012155 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1215088012156 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088012157 ligand binding site [chemical binding]; other site 1215088012158 translocation protein TolB; Provisional; Region: tolB; PRK00178 1215088012159 TolB amino-terminal domain; Region: TolB_N; pfam04052 1215088012160 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1215088012161 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1215088012162 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1215088012163 TolA protein; Region: tolA_full; TIGR02794 1215088012164 TolA protein; Region: tolA_full; TIGR02794 1215088012165 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1215088012166 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1215088012167 TolR protein; Region: tolR; TIGR02801 1215088012168 TolQ protein; Region: tolQ; TIGR02796 1215088012169 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 1215088012170 active site 1215088012171 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1215088012172 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 1215088012173 Walker A motif; other site 1215088012174 ATP binding site [chemical binding]; other site 1215088012175 Walker B motif; other site 1215088012176 arginine finger; other site 1215088012177 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1215088012178 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1215088012179 RuvA N terminal domain; Region: RuvA_N; pfam01330 1215088012180 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1215088012181 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 1215088012182 active site 1215088012183 putative DNA-binding cleft [nucleotide binding]; other site 1215088012184 dimer interface [polypeptide binding]; other site 1215088012185 hypothetical protein; Validated; Region: PRK00110 1215088012186 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1215088012187 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 1215088012188 dimer interface [polypeptide binding]; other site 1215088012189 anticodon binding site; other site 1215088012190 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 1215088012191 homodimer interface [polypeptide binding]; other site 1215088012192 motif 1; other site 1215088012193 active site 1215088012194 motif 2; other site 1215088012195 GAD domain; Region: GAD; pfam02938 1215088012196 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 1215088012197 active site 1215088012198 motif 3; other site 1215088012199 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 1215088012200 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 1215088012201 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1215088012202 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1215088012203 dimerization interface [polypeptide binding]; other site 1215088012204 DPS ferroxidase diiron center [ion binding]; other site 1215088012205 ion pore; other site 1215088012206 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 1215088012207 DNA-binding site [nucleotide binding]; DNA binding site 1215088012208 RNA-binding motif; other site 1215088012209 hypothetical protein; Provisional; Region: PRK00295 1215088012210 HIT domain; Region: HIT; pfam01230 1215088012211 nucleotide binding site/active site [active] 1215088012212 HIT family signature motif; other site 1215088012213 catalytic residue [active] 1215088012214 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088012215 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1215088012216 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 1215088012217 dimer interface [polypeptide binding]; other site 1215088012218 motif 1; other site 1215088012219 active site 1215088012220 motif 2; other site 1215088012221 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 1215088012222 putative deacylase active site [active] 1215088012223 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 1215088012224 active site 1215088012225 motif 3; other site 1215088012226 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 1215088012227 anticodon binding site; other site 1215088012228 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1215088012229 active site 1215088012230 DNA polymerase IV; Validated; Region: PRK02406 1215088012231 DNA binding site [nucleotide binding] 1215088012232 Predicted integral membrane protein [Function unknown]; Region: COG0392 1215088012233 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1215088012234 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1215088012235 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1215088012236 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1215088012237 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1215088012238 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1215088012239 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1215088012240 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 1215088012241 FeS/SAM binding site; other site 1215088012242 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1215088012243 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088012244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1215088012245 Coenzyme A binding pocket [chemical binding]; other site 1215088012246 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1215088012247 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 1215088012248 RNA binding surface [nucleotide binding]; other site 1215088012249 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 1215088012250 active site 1215088012251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1215088012252 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1215088012253 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1215088012254 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1215088012255 homodimer interaction site [polypeptide binding]; other site 1215088012256 cofactor binding site; other site 1215088012257 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1215088012258 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1215088012259 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 1215088012260 dimer interface [polypeptide binding]; other site 1215088012261 phosphorylation site [posttranslational modification] 1215088012262 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 1215088012263 ATP binding site [chemical binding]; other site 1215088012264 G-X-G motif; other site 1215088012265 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1215088012266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088012267 active site 1215088012268 phosphorylation site [posttranslational modification] 1215088012269 intermolecular recognition site; other site 1215088012270 dimerization interface [polypeptide binding]; other site 1215088012271 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 1215088012272 DNA binding site [nucleotide binding] 1215088012273 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1215088012274 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1215088012275 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1215088012276 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1215088012277 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1215088012278 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 1215088012279 dimerization interface [polypeptide binding]; other site 1215088012280 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 1215088012281 dimer interface [polypeptide binding]; other site 1215088012282 phosphorylation site [posttranslational modification] 1215088012283 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 1215088012284 ATP binding site [chemical binding]; other site 1215088012285 Mg2+ binding site [ion binding]; other site 1215088012286 G-X-G motif; other site 1215088012287 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1215088012288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088012289 active site 1215088012290 phosphorylation site [posttranslational modification] 1215088012291 intermolecular recognition site; other site 1215088012292 dimerization interface [polypeptide binding]; other site 1215088012293 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 1215088012294 DNA binding site [nucleotide binding] 1215088012295 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1215088012296 ATP cone domain; Region: ATP-cone; pfam03477 1215088012297 ATP cone domain; Region: ATP-cone; pfam03477 1215088012298 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1215088012299 active site 1215088012300 dimer interface [polypeptide binding]; other site 1215088012301 catalytic residues [active] 1215088012302 effector binding site; other site 1215088012303 R2 peptide binding site; other site 1215088012304 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1215088012305 dimer interface [polypeptide binding]; other site 1215088012306 putative radical transfer pathway; other site 1215088012307 diiron center [ion binding]; other site 1215088012308 tyrosyl radical; other site 1215088012309 BRO family, N-terminal domain; Region: Bro-N; smart01040 1215088012310 transcriptional regulator; Provisional; Region: PRK10632 1215088012311 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088012312 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 1215088012313 putative effector binding pocket; other site 1215088012314 putative dimerization interface [polypeptide binding]; other site 1215088012315 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1215088012316 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1215088012317 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1215088012318 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 1215088012319 FAD binding pocket [chemical binding]; other site 1215088012320 FAD binding motif [chemical binding]; other site 1215088012321 phosphate binding motif [ion binding]; other site 1215088012322 beta-alpha-beta structure motif; other site 1215088012323 NAD binding pocket [chemical binding]; other site 1215088012324 Heme binding pocket [chemical binding]; other site 1215088012325 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1215088012326 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 1215088012327 catalytic loop [active] 1215088012328 iron binding site [ion binding]; other site 1215088012329 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1215088012330 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 1215088012331 putative C-terminal domain interface [polypeptide binding]; other site 1215088012332 putative GSH binding site (G-site) [chemical binding]; other site 1215088012333 putative dimer interface [polypeptide binding]; other site 1215088012334 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1215088012335 putative N-terminal domain interface [polypeptide binding]; other site 1215088012336 putative dimer interface [polypeptide binding]; other site 1215088012337 putative substrate binding pocket (H-site) [chemical binding]; other site 1215088012338 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1215088012339 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1215088012340 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1215088012341 active site 1215088012342 homotetramer interface [polypeptide binding]; other site 1215088012343 homodimer interface [polypeptide binding]; other site 1215088012344 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1215088012345 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 1215088012346 putative active site [active] 1215088012347 catalytic triad [active] 1215088012348 putative dimer interface [polypeptide binding]; other site 1215088012349 acetolactate synthase; Reviewed; Region: PRK08322 1215088012350 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1215088012351 PYR/PP interface [polypeptide binding]; other site 1215088012352 dimer interface [polypeptide binding]; other site 1215088012353 TPP binding site [chemical binding]; other site 1215088012354 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1215088012355 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1215088012356 TPP-binding site [chemical binding]; other site 1215088012357 dimer interface [polypeptide binding]; other site 1215088012358 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1215088012359 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1215088012360 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1215088012361 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 1215088012362 MASE2 domain; Region: MASE2; pfam05230 1215088012363 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088012364 metal binding site [ion binding]; metal-binding site 1215088012365 active site 1215088012366 I-site; other site 1215088012367 CHASE4 domain; Region: CHASE4; pfam05228 1215088012368 PAS domain S-box; Region: sensory_box; TIGR00229 1215088012369 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 1215088012370 putative active site [active] 1215088012371 heme pocket [chemical binding]; other site 1215088012372 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088012373 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088012374 metal binding site [ion binding]; metal-binding site 1215088012375 active site 1215088012376 I-site; other site 1215088012377 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 1215088012378 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 1215088012379 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088012380 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088012381 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1215088012382 putative effector binding pocket; other site 1215088012383 putative dimerization interface [polypeptide binding]; other site 1215088012384 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1215088012385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088012386 NAD(P) binding site [chemical binding]; other site 1215088012387 active site 1215088012388 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1215088012389 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088012390 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088012391 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1215088012392 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1215088012393 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1215088012394 ATP-dependent helicase HepA; Validated; Region: PRK04914 1215088012395 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 1215088012396 ATP binding site [chemical binding]; other site 1215088012397 putative Mg++ binding site [ion binding]; other site 1215088012398 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 1215088012399 nucleotide binding region [chemical binding]; other site 1215088012400 ATP-binding site [chemical binding]; other site 1215088012401 potential frameshift: common BLAST hit: gi|339489010|ref|YP_004703538.1| diguanylate cyclase/phosphodiesterase 1215088012402 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1215088012403 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1215088012404 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 1215088012405 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1215088012406 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 1215088012407 dimerization interface [polypeptide binding]; other site 1215088012408 ligand binding site [chemical binding]; other site 1215088012409 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1215088012410 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 1215088012411 TM-ABC transporter signature motif; other site 1215088012412 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1215088012413 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1215088012414 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 1215088012415 TM-ABC transporter signature motif; other site 1215088012416 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1215088012417 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1215088012418 Walker A/P-loop; other site 1215088012419 ATP binding site [chemical binding]; other site 1215088012420 Q-loop/lid; other site 1215088012421 ABC transporter signature motif; other site 1215088012422 Walker B; other site 1215088012423 D-loop; other site 1215088012424 H-loop/switch region; other site 1215088012425 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1215088012426 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1215088012427 Walker A/P-loop; other site 1215088012428 ATP binding site [chemical binding]; other site 1215088012429 Q-loop/lid; other site 1215088012430 ABC transporter signature motif; other site 1215088012431 Walker B; other site 1215088012432 D-loop; other site 1215088012433 H-loop/switch region; other site 1215088012434 Predicted membrane protein [Function unknown]; Region: COG3650 1215088012435 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1215088012436 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1215088012437 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1215088012438 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1215088012439 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1215088012440 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1215088012441 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1215088012442 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1215088012443 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088012444 ligand binding site [chemical binding]; other site 1215088012445 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1215088012446 Beta-lactamase; Region: Beta-lactamase; pfam00144 1215088012447 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1215088012448 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1215088012449 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1215088012450 Predicted integral membrane protein [Function unknown]; Region: COG5615 1215088012451 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 1215088012452 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1215088012453 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088012454 ligand binding site [chemical binding]; other site 1215088012455 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1215088012456 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088012457 ligand binding site [chemical binding]; other site 1215088012458 hypothetical protein; Provisional; Region: PRK00183 1215088012459 SEC-C motif; Region: SEC-C; pfam02810 1215088012460 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 1215088012461 SEC-C motif; Region: SEC-C; pfam02810 1215088012462 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 1215088012463 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088012464 DNA-binding site [nucleotide binding]; DNA binding site 1215088012465 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 1215088012466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088012467 homodimer interface [polypeptide binding]; other site 1215088012468 catalytic residue [active] 1215088012469 Penicillin amidase; Region: Penicil_amidase; pfam01804 1215088012470 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 1215088012471 active site 1215088012472 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1215088012473 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1215088012474 ATP-dependent DNA ligase; Validated; Region: PRK09247 1215088012475 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1215088012476 active site 1215088012477 DNA binding site [nucleotide binding] 1215088012478 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 1215088012479 DNA binding site [nucleotide binding] 1215088012480 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1215088012481 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1215088012482 active site 1215088012483 Zn binding site [ion binding]; other site 1215088012484 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1215088012485 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 1215088012486 ATP binding site [chemical binding]; other site 1215088012487 putative Mg++ binding site [ion binding]; other site 1215088012488 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 1215088012489 nucleotide binding region [chemical binding]; other site 1215088012490 ATP-binding site [chemical binding]; other site 1215088012491 DEAD/H associated; Region: DEAD_assoc; pfam08494 1215088012492 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1215088012493 putative active site [active] 1215088012494 putative metal binding site [ion binding]; other site 1215088012495 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1215088012496 trimer interface [polypeptide binding]; other site 1215088012497 active site 1215088012498 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 1215088012499 DNA-binding site [nucleotide binding]; DNA binding site 1215088012500 RNA-binding motif; other site 1215088012501 antiporter inner membrane protein; Provisional; Region: PRK11670 1215088012502 Domain of unknown function DUF59; Region: DUF59; pfam01883 1215088012503 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 1215088012504 Walker A motif; other site 1215088012505 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1215088012506 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1215088012507 active site 1215088012508 HIGH motif; other site 1215088012509 KMSKS motif; other site 1215088012510 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1215088012511 tRNA binding surface [nucleotide binding]; other site 1215088012512 anticodon binding site; other site 1215088012513 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 1215088012514 dimer interface [polypeptide binding]; other site 1215088012515 putative tRNA-binding site [nucleotide binding]; other site 1215088012516 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 1215088012517 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1215088012518 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 1215088012519 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1215088012520 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1215088012521 minor groove reading motif; other site 1215088012522 helix-hairpin-helix signature motif; other site 1215088012523 substrate binding pocket [chemical binding]; other site 1215088012524 active site 1215088012525 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1215088012526 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1215088012527 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088012528 active site 1215088012529 phosphorylation site [posttranslational modification] 1215088012530 intermolecular recognition site; other site 1215088012531 dimerization interface [polypeptide binding]; other site 1215088012532 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 1215088012533 DNA binding residues [nucleotide binding] 1215088012534 dimerization interface [polypeptide binding]; other site 1215088012535 argininosuccinate synthase; Provisional; Region: PRK13820 1215088012536 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 1215088012537 ANP binding site [chemical binding]; other site 1215088012538 Substrate Binding Site II [chemical binding]; other site 1215088012539 Substrate Binding Site I [chemical binding]; other site 1215088012540 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1215088012541 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088012542 ligand binding site [chemical binding]; other site 1215088012543 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 1215088012544 active site 1215088012545 substrate binding pocket [chemical binding]; other site 1215088012546 dimer interface [polypeptide binding]; other site 1215088012547 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1215088012548 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1215088012549 dimer interface [polypeptide binding]; other site 1215088012550 catalytic site [active] 1215088012551 putative active site [active] 1215088012552 putative substrate binding site [chemical binding]; other site 1215088012553 peroxidase; Provisional; Region: PRK15000 1215088012554 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 1215088012555 dimer interface [polypeptide binding]; other site 1215088012556 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1215088012557 catalytic triad [active] 1215088012558 peroxidatic and resolving cysteines [active] 1215088012559 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1215088012560 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1215088012561 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1215088012562 heme binding site [chemical binding]; other site 1215088012563 ferroxidase pore; other site 1215088012564 ferroxidase diiron center [ion binding]; other site 1215088012565 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 1215088012566 putative GSH binding site [chemical binding]; other site 1215088012567 catalytic residues [active] 1215088012568 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1215088012569 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 1215088012570 putative [Fe4-S4] binding site [ion binding]; other site 1215088012571 putative molybdopterin cofactor binding site [chemical binding]; other site 1215088012572 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 1215088012573 putative molybdopterin cofactor binding site; other site 1215088012574 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1215088012575 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1215088012576 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1215088012577 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1215088012578 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1215088012579 Walker A/P-loop; other site 1215088012580 ATP binding site [chemical binding]; other site 1215088012581 Q-loop/lid; other site 1215088012582 ABC transporter signature motif; other site 1215088012583 Walker B; other site 1215088012584 D-loop; other site 1215088012585 H-loop/switch region; other site 1215088012586 TOBE domain; Region: TOBE_2; pfam08402 1215088012587 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 1215088012588 putative deacylase active site [active] 1215088012589 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 1215088012590 amphipathic channel; other site 1215088012591 Asn-Pro-Ala signature motifs; other site 1215088012592 glycerol kinase; Provisional; Region: glpK; PRK00047 1215088012593 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1215088012594 N- and C-terminal domain interface [polypeptide binding]; other site 1215088012595 active site 1215088012596 MgATP binding site [chemical binding]; other site 1215088012597 catalytic site [active] 1215088012598 metal binding site [ion binding]; metal-binding site 1215088012599 glycerol binding site [chemical binding]; other site 1215088012600 homotetramer interface [polypeptide binding]; other site 1215088012601 homodimer interface [polypeptide binding]; other site 1215088012602 protein IIAGlc interface [polypeptide binding]; other site 1215088012603 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1215088012604 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1215088012605 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1215088012606 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1215088012607 Leucine rich repeat; Region: LRR_8; pfam13855 1215088012608 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1215088012609 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 1215088012610 substrate binding pocket [chemical binding]; other site 1215088012611 membrane-bound complex binding site; other site 1215088012612 hinge residues; other site 1215088012613 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088012614 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 1215088012615 dimer interface [polypeptide binding]; other site 1215088012616 conserved gate region; other site 1215088012617 putative PBP binding loops; other site 1215088012618 ABC-ATPase subunit interface; other site 1215088012619 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088012620 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 1215088012621 dimer interface [polypeptide binding]; other site 1215088012622 conserved gate region; other site 1215088012623 putative PBP binding loops; other site 1215088012624 ABC-ATPase subunit interface; other site 1215088012625 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1215088012626 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1215088012627 Walker A/P-loop; other site 1215088012628 ATP binding site [chemical binding]; other site 1215088012629 Q-loop/lid; other site 1215088012630 ABC transporter signature motif; other site 1215088012631 Walker B; other site 1215088012632 D-loop; other site 1215088012633 H-loop/switch region; other site 1215088012634 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1215088012635 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 1215088012636 dimer interface [polypeptide binding]; other site 1215088012637 phosphorylation site [posttranslational modification] 1215088012638 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 1215088012639 Mg2+ binding site [ion binding]; other site 1215088012640 G-X-G motif; other site 1215088012641 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1215088012642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088012643 active site 1215088012644 phosphorylation site [posttranslational modification] 1215088012645 intermolecular recognition site; other site 1215088012646 dimerization interface [polypeptide binding]; other site 1215088012647 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 1215088012648 Walker A motif; other site 1215088012649 ATP binding site [chemical binding]; other site 1215088012650 Walker B motif; other site 1215088012651 arginine finger; other site 1215088012652 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088012653 GlpM protein; Region: GlpM; pfam06942 1215088012654 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1215088012655 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1215088012656 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1215088012657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088012658 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 1215088012659 putative dimerization interface [polypeptide binding]; other site 1215088012660 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 1215088012661 nudix motif; other site 1215088012662 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 1215088012663 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 1215088012664 ATP binding site [chemical binding]; other site 1215088012665 putative Mg++ binding site [ion binding]; other site 1215088012666 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 1215088012667 nucleotide binding region [chemical binding]; other site 1215088012668 ATP-binding site [chemical binding]; other site 1215088012669 DEAD/H associated; Region: DEAD_assoc; pfam08494 1215088012670 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1215088012671 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 1215088012672 active site 1215088012673 FMN binding site [chemical binding]; other site 1215088012674 substrate binding site [chemical binding]; other site 1215088012675 3Fe-4S cluster binding site [ion binding]; other site 1215088012676 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1215088012677 Spore germination protein; Region: Spore_permease; cl17796 1215088012678 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1215088012679 Transglycosylase; Region: Transgly; pfam00912 1215088012680 Predicted transcriptional regulators [Transcription]; Region: COG1695 1215088012681 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1215088012682 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1215088012683 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 1215088012684 FAD binding pocket [chemical binding]; other site 1215088012685 FAD binding motif [chemical binding]; other site 1215088012686 phosphate binding motif [ion binding]; other site 1215088012687 NAD binding pocket [chemical binding]; other site 1215088012688 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1215088012689 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1215088012690 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 1215088012691 N-terminal plug; other site 1215088012692 ligand-binding site [chemical binding]; other site 1215088012693 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1215088012694 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1215088012695 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1215088012696 Trp docking motif [polypeptide binding]; other site 1215088012697 putative active site [active] 1215088012698 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1215088012699 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 1215088012700 Walker A motif; other site 1215088012701 ATP binding site [chemical binding]; other site 1215088012702 Walker B motif; other site 1215088012703 arginine finger; other site 1215088012704 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1215088012705 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 1215088012706 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 1215088012707 S-adenosylmethionine binding site [chemical binding]; other site 1215088012708 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1215088012709 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 1215088012710 S-adenosylmethionine binding site [chemical binding]; other site 1215088012711 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1215088012712 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088012713 active site 1215088012714 phosphorylation site [posttranslational modification] 1215088012715 intermolecular recognition site; other site 1215088012716 dimerization interface [polypeptide binding]; other site 1215088012717 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 1215088012718 DNA binding site [nucleotide binding] 1215088012719 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1215088012720 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 1215088012721 dimerization interface [polypeptide binding]; other site 1215088012722 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 1215088012723 dimer interface [polypeptide binding]; other site 1215088012724 phosphorylation site [posttranslational modification] 1215088012725 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 1215088012726 ATP binding site [chemical binding]; other site 1215088012727 Mg2+ binding site [ion binding]; other site 1215088012728 G-X-G motif; other site 1215088012729 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 1215088012730 active site 1215088012731 hydrophilic channel; other site 1215088012732 dimerization interface [polypeptide binding]; other site 1215088012733 catalytic residues [active] 1215088012734 active site lid [active] 1215088012735 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1215088012736 Recombination protein O N terminal; Region: RecO_N; pfam11967 1215088012737 Recombination protein O C terminal; Region: RecO_C; pfam02565 1215088012738 GTPase Era; Reviewed; Region: era; PRK00089 1215088012739 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1215088012740 G1 box; other site 1215088012741 GTP/Mg2+ binding site [chemical binding]; other site 1215088012742 Switch I region; other site 1215088012743 G2 box; other site 1215088012744 Switch II region; other site 1215088012745 G3 box; other site 1215088012746 G4 box; other site 1215088012747 G5 box; other site 1215088012748 KH domain; Region: KH_2; pfam07650 1215088012749 ribonuclease III; Reviewed; Region: rnc; PRK00102 1215088012750 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 1215088012751 dimerization interface [polypeptide binding]; other site 1215088012752 active site 1215088012753 metal binding site [ion binding]; metal-binding site 1215088012754 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 1215088012755 dsRNA binding site [nucleotide binding]; other site 1215088012756 signal peptidase I; Provisional; Region: PRK10861 1215088012757 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 1215088012758 Catalytic site [active] 1215088012759 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 1215088012760 GTP-binding protein LepA; Provisional; Region: PRK05433 1215088012761 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1215088012762 G1 box; other site 1215088012763 putative GEF interaction site [polypeptide binding]; other site 1215088012764 GTP/Mg2+ binding site [chemical binding]; other site 1215088012765 Switch I region; other site 1215088012766 G2 box; other site 1215088012767 G3 box; other site 1215088012768 Switch II region; other site 1215088012769 G4 box; other site 1215088012770 G5 box; other site 1215088012771 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 1215088012772 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 1215088012773 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1215088012774 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 1215088012775 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1215088012776 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1215088012777 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 1215088012778 protein binding site [polypeptide binding]; other site 1215088012779 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 1215088012780 protein binding site [polypeptide binding]; other site 1215088012781 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1215088012782 MucB/RseB family; Region: MucB_RseB; pfam03888 1215088012783 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1215088012784 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1215088012785 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1215088012786 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1215088012787 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088012788 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 1215088012789 DNA binding residues [nucleotide binding] 1215088012790 L-aspartate oxidase; Provisional; Region: PRK09077 1215088012791 L-aspartate oxidase; Provisional; Region: PRK06175 1215088012792 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1215088012793 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1215088012794 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1215088012795 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1215088012796 HDOD domain; Region: HDOD; pfam08668 1215088012797 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1215088012798 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 1215088012799 dimerization interface [polypeptide binding]; other site 1215088012800 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 1215088012801 dimer interface [polypeptide binding]; other site 1215088012802 phosphorylation site [posttranslational modification] 1215088012803 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 1215088012804 ATP binding site [chemical binding]; other site 1215088012805 Mg2+ binding site [ion binding]; other site 1215088012806 G-X-G motif; other site 1215088012807 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1215088012808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088012809 active site 1215088012810 phosphorylation site [posttranslational modification] 1215088012811 intermolecular recognition site; other site 1215088012812 dimerization interface [polypeptide binding]; other site 1215088012813 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 1215088012814 DNA binding site [nucleotide binding] 1215088012815 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088012816 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1215088012817 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1215088012818 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1215088012819 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1215088012820 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1215088012821 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1215088012822 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1215088012823 ligand binding site [chemical binding]; other site 1215088012824 active site 1215088012825 UGI interface [polypeptide binding]; other site 1215088012826 catalytic site [active] 1215088012827 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1215088012828 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 1215088012829 substrate binding site [chemical binding]; other site 1215088012830 oxyanion hole (OAH) forming residues; other site 1215088012831 trimer interface [polypeptide binding]; other site 1215088012832 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1215088012833 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 1215088012834 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1215088012835 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 1215088012836 RNA binding surface [nucleotide binding]; other site 1215088012837 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1215088012838 active site 1215088012839 uracil binding [chemical binding]; other site 1215088012840 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1215088012841 potential protein location (hypothetical protein B479_21260 [Pseudomonas putida]) that overlaps RNA (tRNA-G) 1215088012842 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1215088012843 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1215088012844 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1215088012845 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 1215088012846 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 1215088012847 TPR motif; other site 1215088012848 binding surface 1215088012849 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 1215088012850 binding surface 1215088012851 TPR motif; other site 1215088012852 TPR repeat; Region: TPR_11; pfam13414 1215088012853 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 1215088012854 binding surface 1215088012855 TPR motif; other site 1215088012856 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1215088012857 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1215088012858 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1215088012859 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1215088012860 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1215088012861 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1215088012862 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1215088012863 ATP binding site [chemical binding]; other site 1215088012864 Walker A motif; other site 1215088012865 hexamer interface [polypeptide binding]; other site 1215088012866 Walker B motif; other site 1215088012867 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088012868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1215088012869 active site 1215088012870 dimerization interface [polypeptide binding]; other site 1215088012871 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1215088012872 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 1215088012873 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1215088012874 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1215088012875 TadE-like protein; Region: TadE; pfam07811 1215088012876 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1215088012877 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 1215088012878 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1215088012879 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1215088012880 BON domain; Region: BON; pfam04972 1215088012881 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1215088012882 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1215088012883 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1215088012884 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 1215088012885 Walker A motif; other site 1215088012886 ATP binding site [chemical binding]; other site 1215088012887 Walker B motif; other site 1215088012888 arginine finger; other site 1215088012889 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1215088012890 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1215088012891 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088012892 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088012893 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088012894 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1215088012895 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 1215088012896 S-adenosylmethionine binding site [chemical binding]; other site 1215088012897 Repair protein; Region: Repair_PSII; cl01535 1215088012898 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1215088012899 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1215088012900 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1215088012901 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1215088012902 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 1215088012903 dimer interface [polypeptide binding]; other site 1215088012904 phosphorylation site [posttranslational modification] 1215088012905 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 1215088012906 ATP binding site [chemical binding]; other site 1215088012907 Mg2+ binding site [ion binding]; other site 1215088012908 G-X-G motif; other site 1215088012909 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1215088012910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088012911 active site 1215088012912 phosphorylation site [posttranslational modification] 1215088012913 intermolecular recognition site; other site 1215088012914 dimerization interface [polypeptide binding]; other site 1215088012915 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 1215088012916 Walker A motif; other site 1215088012917 ATP binding site [chemical binding]; other site 1215088012918 Walker B motif; other site 1215088012919 arginine finger; other site 1215088012920 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088012921 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1215088012922 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088012923 putative substrate translocation pore; other site 1215088012924 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1215088012925 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1215088012926 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1215088012927 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 1215088012928 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1215088012929 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1215088012930 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1215088012931 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1215088012932 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088012933 hypothetical protein; Provisional; Region: PRK07524 1215088012934 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1215088012935 PYR/PP interface [polypeptide binding]; other site 1215088012936 dimer interface [polypeptide binding]; other site 1215088012937 TPP binding site [chemical binding]; other site 1215088012938 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1215088012939 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 1215088012940 TPP-binding site [chemical binding]; other site 1215088012941 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1215088012942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088012943 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 1215088012944 substrate binding pocket [chemical binding]; other site 1215088012945 dimerization interface [polypeptide binding]; other site 1215088012946 Putative NADH-flavin reductase [General function prediction only]; Region: COG2910 1215088012947 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1215088012948 NAD(P) binding site [chemical binding]; other site 1215088012949 active site 1215088012950 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1215088012951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088012952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088012953 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 1215088012954 putative effector binding pocket; other site 1215088012955 dimerization interface [polypeptide binding]; other site 1215088012956 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 1215088012957 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1215088012958 tetramer interface [polypeptide binding]; other site 1215088012959 active site 1215088012960 Mg2+/Mn2+ binding site [ion binding]; other site 1215088012961 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088012962 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088012963 putative substrate translocation pore; other site 1215088012964 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088012965 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1215088012966 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088012967 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1215088012968 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 1215088012969 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088012970 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088012971 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1215088012972 Protein export membrane protein; Region: SecD_SecF; cl14618 1215088012973 Protein export membrane protein; Region: SecD_SecF; cl14618 1215088012974 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1215088012975 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088012976 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088012977 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088012978 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 1215088012979 dimerization interface [polypeptide binding]; other site 1215088012980 Predicted membrane protein [Function unknown]; Region: COG4539 1215088012981 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1215088012982 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1215088012983 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1215088012984 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1215088012985 tetramer interface [polypeptide binding]; other site 1215088012986 active site 1215088012987 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1215088012988 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088012989 putative substrate translocation pore; other site 1215088012990 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1215088012991 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 1215088012992 dimer interface [polypeptide binding]; other site 1215088012993 active site 1215088012994 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 1215088012995 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1215088012996 benzoate transport; Region: 2A0115; TIGR00895 1215088012997 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088012998 putative substrate translocation pore; other site 1215088012999 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088013000 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1215088013001 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1215088013002 Bacterial transcriptional regulator; Region: IclR; pfam01614 1215088013003 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1215088013004 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1215088013005 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1215088013006 Cache domain; Region: Cache_1; pfam02743 1215088013007 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 1215088013008 dimerization interface [polypeptide binding]; other site 1215088013009 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088013010 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088013011 dimer interface [polypeptide binding]; other site 1215088013012 putative CheW interface [polypeptide binding]; other site 1215088013013 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1215088013014 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 1215088013015 Predicted deacetylase [General function prediction only]; Region: COG3233 1215088013016 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 1215088013017 putative active site [active] 1215088013018 putative Zn binding site [ion binding]; other site 1215088013019 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1215088013020 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1215088013021 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1215088013022 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1215088013023 putative active site [active] 1215088013024 putative substrate binding site [chemical binding]; other site 1215088013025 putative cosubstrate binding site; other site 1215088013026 catalytic site [active] 1215088013027 exonuclease I; Provisional; Region: sbcB; PRK11779 1215088013028 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1215088013029 active site 1215088013030 catalytic site [active] 1215088013031 substrate binding site [chemical binding]; other site 1215088013032 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1215088013033 PilZ domain; Region: PilZ; pfam07238 1215088013034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1215088013035 pyruvate kinase; Provisional; Region: PRK05826 1215088013036 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 1215088013037 domain interfaces; other site 1215088013038 active site 1215088013039 hypothetical protein; Provisional; Region: PRK05713 1215088013040 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 1215088013041 catalytic loop [active] 1215088013042 iron binding site [ion binding]; other site 1215088013043 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 1215088013044 FAD binding pocket [chemical binding]; other site 1215088013045 FAD binding motif [chemical binding]; other site 1215088013046 phosphate binding motif [ion binding]; other site 1215088013047 beta-alpha-beta structure motif; other site 1215088013048 NAD binding pocket [chemical binding]; other site 1215088013049 putative fumarate hydratase; Provisional; Region: PRK15392 1215088013050 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1215088013051 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1215088013052 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1215088013053 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 1215088013054 putative active site [active] 1215088013055 catalytic triad [active] 1215088013056 putative dimer interface [polypeptide binding]; other site 1215088013057 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088013058 Coenzyme A binding pocket [chemical binding]; other site 1215088013059 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 1215088013060 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1215088013061 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1215088013062 conserved cys residue [active] 1215088013063 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1215088013064 PLD-like domain; Region: PLDc_2; pfam13091 1215088013065 putative active site [active] 1215088013066 catalytic site [active] 1215088013067 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1215088013068 PLD-like domain; Region: PLDc_2; pfam13091 1215088013069 putative active site [active] 1215088013070 catalytic site [active] 1215088013071 YceI-like domain; Region: YceI; pfam04264 1215088013072 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1215088013073 Beta-lactamase; Region: Beta-lactamase; pfam00144 1215088013074 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088013075 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1215088013076 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1215088013077 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1215088013078 putative acyl-acceptor binding pocket; other site 1215088013079 Protein of unknown function, DUF479; Region: DUF479; cl01203 1215088013080 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 1215088013081 dimerization interface [polypeptide binding]; other site 1215088013082 putative DNA binding site [nucleotide binding]; other site 1215088013083 putative Zn2+ binding site [ion binding]; other site 1215088013084 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1215088013085 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 1215088013086 FMN binding site [chemical binding]; other site 1215088013087 active site 1215088013088 substrate binding site [chemical binding]; other site 1215088013089 catalytic residue [active] 1215088013090 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1215088013091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088013092 NAD(P) binding site [chemical binding]; other site 1215088013093 active site 1215088013094 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1215088013095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088013096 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 1215088013097 dimerization interface [polypeptide binding]; other site 1215088013098 Lysine efflux permease [General function prediction only]; Region: COG1279 1215088013099 superoxide dismutase; Provisional; Region: PRK10543 1215088013100 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1215088013101 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1215088013102 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1215088013103 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088013104 DNA-binding site [nucleotide binding]; DNA binding site 1215088013105 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1215088013106 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1215088013107 DNA-binding site [nucleotide binding]; DNA binding site 1215088013108 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1215088013109 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1215088013110 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1215088013111 Trp docking motif [polypeptide binding]; other site 1215088013112 putative active site [active] 1215088013113 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1215088013114 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1215088013115 substrate binding pocket [chemical binding]; other site 1215088013116 active site 1215088013117 iron coordination sites [ion binding]; other site 1215088013118 biofilm formation regulator HmsP; Provisional; Region: PRK11829 1215088013119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088013120 metal binding site [ion binding]; metal-binding site 1215088013121 active site 1215088013122 I-site; other site 1215088013123 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 1215088013124 Imelysin; Region: Peptidase_M75; cl09159 1215088013125 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1215088013126 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1215088013127 Imelysin; Region: Peptidase_M75; cl09159 1215088013128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 1215088013129 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1215088013130 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088013131 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088013132 multidrug efflux protein; Reviewed; Region: PRK09579 1215088013133 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1215088013134 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1215088013135 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 1215088013136 S-adenosylmethionine binding site [chemical binding]; other site 1215088013137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1215088013138 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 1215088013139 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 1215088013140 dimer interface [polypeptide binding]; other site 1215088013141 phosphorylation site [posttranslational modification] 1215088013142 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 1215088013143 ATP binding site [chemical binding]; other site 1215088013144 Mg2+ binding site [ion binding]; other site 1215088013145 G-X-G motif; other site 1215088013146 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1215088013147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088013148 active site 1215088013149 phosphorylation site [posttranslational modification] 1215088013150 intermolecular recognition site; other site 1215088013151 dimerization interface [polypeptide binding]; other site 1215088013152 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 1215088013153 DNA binding site [nucleotide binding] 1215088013154 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 1215088013155 active site 1215088013156 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1215088013157 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 1215088013158 ring oligomerisation interface [polypeptide binding]; other site 1215088013159 ATP/Mg binding site [chemical binding]; other site 1215088013160 stacking interactions; other site 1215088013161 hinge regions; other site 1215088013162 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 1215088013163 oligomerisation interface [polypeptide binding]; other site 1215088013164 mobile loop; other site 1215088013165 roof hairpin; other site 1215088013166 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1215088013167 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1215088013168 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1215088013169 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1215088013170 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1215088013171 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 1215088013172 active site 1215088013173 DNA binding site [nucleotide binding] 1215088013174 muropeptide transporter; Validated; Region: ampG; cl17669 1215088013175 muropeptide transporter; Validated; Region: ampG; cl17669 1215088013176 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 1215088013177 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088013178 mechanosensitive channel MscS; Provisional; Region: PRK10334 1215088013179 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1215088013180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1215088013181 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1215088013182 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 1215088013183 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1215088013184 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1215088013185 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 1215088013186 dimerization interface [polypeptide binding]; other site 1215088013187 PAS domain; Region: PAS; smart00091 1215088013188 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1215088013189 putative active site [active] 1215088013190 heme pocket [chemical binding]; other site 1215088013191 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 1215088013192 dimer interface [polypeptide binding]; other site 1215088013193 phosphorylation site [posttranslational modification] 1215088013194 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 1215088013195 ATP binding site [chemical binding]; other site 1215088013196 Mg2+ binding site [ion binding]; other site 1215088013197 G-X-G motif; other site 1215088013198 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1215088013199 hypothetical protein; Provisional; Region: PRK08999 1215088013200 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 1215088013201 active site 1215088013202 8-oxo-dGMP binding site [chemical binding]; other site 1215088013203 nudix motif; other site 1215088013204 metal binding site [ion binding]; metal-binding site 1215088013205 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 1215088013206 thiamine phosphate binding site [chemical binding]; other site 1215088013207 active site 1215088013208 pyrophosphate binding site [ion binding]; other site 1215088013209 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 1215088013210 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1215088013211 putative C-terminal domain interface [polypeptide binding]; other site 1215088013212 putative GSH binding site (G-site) [chemical binding]; other site 1215088013213 putative dimer interface [polypeptide binding]; other site 1215088013214 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1215088013215 putative substrate binding pocket (H-site) [chemical binding]; other site 1215088013216 putative N-terminal domain interface [polypeptide binding]; other site 1215088013217 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 1215088013218 heterotetramer interface [polypeptide binding]; other site 1215088013219 active site pocket [active] 1215088013220 cleavage site 1215088013221 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 1215088013222 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1215088013223 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1215088013224 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 1215088013225 nucleotide binding region [chemical binding]; other site 1215088013226 ATP-binding site [chemical binding]; other site 1215088013227 SEC-C motif; Region: SEC-C; pfam02810 1215088013228 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1215088013229 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1215088013230 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1215088013231 cell division protein FtsZ; Validated; Region: PRK09330 1215088013232 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 1215088013233 nucleotide binding site [chemical binding]; other site 1215088013234 SulA interaction site; other site 1215088013235 cell division protein FtsA; Region: ftsA; TIGR01174 1215088013236 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1215088013237 nucleotide binding site [chemical binding]; other site 1215088013238 Cell division protein FtsA; Region: FtsA; pfam14450 1215088013239 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1215088013240 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1215088013241 Cell division protein FtsQ; Region: FtsQ; pfam03799 1215088013242 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1215088013243 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1215088013244 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1215088013245 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1215088013246 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1215088013247 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1215088013248 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1215088013249 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1215088013250 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 1215088013251 active site 1215088013252 homodimer interface [polypeptide binding]; other site 1215088013253 cell division protein FtsW; Region: ftsW; TIGR02614 1215088013254 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1215088013255 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1215088013256 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1215088013257 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 1215088013258 Mg++ binding site [ion binding]; other site 1215088013259 putative catalytic motif [active] 1215088013260 putative substrate binding site [chemical binding]; other site 1215088013261 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1215088013262 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1215088013263 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1215088013264 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1215088013265 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1215088013266 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1215088013267 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1215088013268 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1215088013269 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1215088013270 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1215088013271 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1215088013272 Cell division protein FtsL; Region: FtsL; pfam04999 1215088013273 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1215088013274 MraW methylase family; Region: Methyltransf_5; cl17771 1215088013275 cell division protein MraZ; Reviewed; Region: PRK00326 1215088013276 MraZ protein; Region: MraZ; pfam02381 1215088013277 MraZ protein; Region: MraZ; pfam02381 1215088013278 Predicted methyltransferases [General function prediction only]; Region: COG0313 1215088013279 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1215088013280 putative SAM binding site [chemical binding]; other site 1215088013281 putative homodimer interface [polypeptide binding]; other site 1215088013282 LppC putative lipoprotein; Region: LppC; pfam04348 1215088013283 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1215088013284 putative ligand binding site [chemical binding]; other site 1215088013285 hypothetical protein; Reviewed; Region: PRK12497 1215088013286 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 1215088013287 dimer interface [polypeptide binding]; other site 1215088013288 active site 1215088013289 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1215088013290 BON domain; Region: BON; pfam04972 1215088013291 BON domain; Region: BON; pfam04972 1215088013292 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1215088013293 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1215088013294 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 1215088013295 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1215088013296 C-terminal domain interface [polypeptide binding]; other site 1215088013297 putative GSH binding site (G-site) [chemical binding]; other site 1215088013298 dimer interface [polypeptide binding]; other site 1215088013299 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1215088013300 dimer interface [polypeptide binding]; other site 1215088013301 N-terminal domain interface [polypeptide binding]; other site 1215088013302 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1215088013303 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1215088013304 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 1215088013305 Qi binding site; other site 1215088013306 intrachain domain interface; other site 1215088013307 interchain domain interface [polypeptide binding]; other site 1215088013308 heme bH binding site [chemical binding]; other site 1215088013309 heme bL binding site [chemical binding]; other site 1215088013310 Qo binding site; other site 1215088013311 interchain domain interface [polypeptide binding]; other site 1215088013312 intrachain domain interface; other site 1215088013313 Qi binding site; other site 1215088013314 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1215088013315 Qo binding site; other site 1215088013316 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1215088013317 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 1215088013318 [2Fe-2S] cluster binding site [ion binding]; other site 1215088013319 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1215088013320 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 1215088013321 23S rRNA interface [nucleotide binding]; other site 1215088013322 L3 interface [polypeptide binding]; other site 1215088013323 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 1215088013324 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1215088013325 active site 1215088013326 catalytic tetrad [active] 1215088013327 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1215088013328 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1215088013329 conserved cys residue [active] 1215088013330 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088013331 Predicted ATPase [General function prediction only]; Region: COG1485 1215088013332 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1215088013333 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1215088013334 active site 1215088013335 HIGH motif; other site 1215088013336 dimer interface [polypeptide binding]; other site 1215088013337 KMSKS motif; other site 1215088013338 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1215088013339 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 1215088013340 methionine gamma-lyase; Provisional; Region: PRK07503 1215088013341 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 1215088013342 homodimer interface [polypeptide binding]; other site 1215088013343 substrate-cofactor binding pocket; other site 1215088013344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088013345 catalytic residue [active] 1215088013346 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1215088013347 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1215088013348 putative DNA binding site [nucleotide binding]; other site 1215088013349 putative Zn2+ binding site [ion binding]; other site 1215088013350 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088013351 S-type Pyocin; Region: Pyocin_S; pfam06958 1215088013352 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 1215088013353 active site 1215088013354 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 1215088013355 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1215088013356 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1215088013357 CysD dimerization site [polypeptide binding]; other site 1215088013358 G1 box; other site 1215088013359 putative GEF interaction site [polypeptide binding]; other site 1215088013360 GTP/Mg2+ binding site [chemical binding]; other site 1215088013361 Switch I region; other site 1215088013362 G2 box; other site 1215088013363 G3 box; other site 1215088013364 Switch II region; other site 1215088013365 G4 box; other site 1215088013366 G5 box; other site 1215088013367 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 1215088013368 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 1215088013369 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 1215088013370 ligand-binding site [chemical binding]; other site 1215088013371 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1215088013372 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 1215088013373 Active Sites [active] 1215088013374 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1215088013375 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1215088013376 serine endoprotease; Provisional; Region: PRK10898 1215088013377 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1215088013378 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 1215088013379 protein binding site [polypeptide binding]; other site 1215088013380 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1215088013381 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1215088013382 Walker A/P-loop; other site 1215088013383 ATP binding site [chemical binding]; other site 1215088013384 Q-loop/lid; other site 1215088013385 ABC transporter signature motif; other site 1215088013386 Walker B; other site 1215088013387 D-loop; other site 1215088013388 H-loop/switch region; other site 1215088013389 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088013390 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 1215088013391 dimer interface [polypeptide binding]; other site 1215088013392 conserved gate region; other site 1215088013393 putative PBP binding loops; other site 1215088013394 ABC-ATPase subunit interface; other site 1215088013395 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1215088013396 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 1215088013397 conserved gate region; other site 1215088013398 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 1215088013399 dimer interface [polypeptide binding]; other site 1215088013400 ABC-ATPase subunit interface; other site 1215088013401 putative PBP binding loops; other site 1215088013402 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 1215088013403 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1215088013404 substrate binding pocket [chemical binding]; other site 1215088013405 membrane-bound complex binding site; other site 1215088013406 hinge residues; other site 1215088013407 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1215088013408 putative hydrolase; Provisional; Region: PRK11460 1215088013409 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1215088013410 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 1215088013411 ATP binding site [chemical binding]; other site 1215088013412 Mg++ binding site [ion binding]; other site 1215088013413 motif III; other site 1215088013414 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 1215088013415 nucleotide binding region [chemical binding]; other site 1215088013416 ATP-binding site [chemical binding]; other site 1215088013417 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1215088013418 MoaE interaction surface [polypeptide binding]; other site 1215088013419 MoeB interaction surface [polypeptide binding]; other site 1215088013420 thiocarboxylated glycine; other site 1215088013421 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 1215088013422 trimer interface [polypeptide binding]; other site 1215088013423 dimer interface [polypeptide binding]; other site 1215088013424 putative active site [active] 1215088013425 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1215088013426 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1215088013427 putative active site [active] 1215088013428 PhoH-like protein; Region: PhoH; pfam02562 1215088013429 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1215088013430 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1215088013431 NodB motif; other site 1215088013432 active site 1215088013433 catalytic site [active] 1215088013434 metal binding site [ion binding]; metal-binding site 1215088013435 hypothetical protein; Validated; Region: PRK02101 1215088013436 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1215088013437 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1215088013438 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1215088013439 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1215088013440 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1215088013441 PilZ domain; Region: PilZ; pfam07238 1215088013442 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088013443 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1215088013444 Sel1-like repeats; Region: SEL1; smart00671 1215088013445 Right handed beta helix region; Region: Beta_helix; pfam13229 1215088013446 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1215088013447 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 1215088013448 active site 1215088013449 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1215088013450 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 1215088013451 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1215088013452 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1215088013453 Substrate binding site; other site 1215088013454 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1215088013455 short chain dehydrogenase; Provisional; Region: PRK05693 1215088013456 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1215088013457 NADP binding site [chemical binding]; other site 1215088013458 active site 1215088013459 steroid binding site; other site 1215088013460 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1215088013461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088013462 NAD(P) binding site [chemical binding]; other site 1215088013463 active site 1215088013464 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1215088013465 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1215088013466 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088013467 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088013468 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1215088013469 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088013470 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088013471 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088013472 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 1215088013473 putative substrate binding pocket [chemical binding]; other site 1215088013474 putative dimerization interface [polypeptide binding]; other site 1215088013475 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 1215088013476 Ligand Binding Site [chemical binding]; other site 1215088013477 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1215088013478 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088013479 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088013480 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1215088013481 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1215088013482 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1215088013483 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1215088013484 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088013485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088013486 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 1215088013487 putative effector binding pocket; other site 1215088013488 dimerization interface [polypeptide binding]; other site 1215088013489 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1215088013490 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1215088013491 dimerization interface [polypeptide binding]; other site 1215088013492 ligand binding site [chemical binding]; other site 1215088013493 NADP binding site [chemical binding]; other site 1215088013494 catalytic site [active] 1215088013495 EamA-like transporter family; Region: EamA; pfam00892 1215088013496 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088013497 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088013498 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088013499 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1215088013500 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 1215088013501 N-terminal plug; other site 1215088013502 ligand-binding site [chemical binding]; other site 1215088013503 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1215088013504 FecR protein; Region: FecR; pfam04773 1215088013505 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 1215088013506 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088013507 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 1215088013508 DNA binding residues [nucleotide binding] 1215088013509 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1215088013510 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1215088013511 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1215088013512 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1215088013513 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 1215088013514 30S subunit binding site; other site 1215088013515 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1215088013516 Predicted membrane protein [Function unknown]; Region: COG3223 1215088013517 YebG protein; Region: YebG; pfam07130 1215088013518 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1215088013519 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1215088013520 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1215088013521 NAD binding site [chemical binding]; other site 1215088013522 Phe binding site; other site 1215088013523 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1215088013524 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1215088013525 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1215088013526 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1215088013527 dimer interface [polypeptide binding]; other site 1215088013528 N-terminal domain interface [polypeptide binding]; other site 1215088013529 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1215088013530 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 1215088013531 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1215088013532 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1215088013533 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1215088013534 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1215088013535 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1215088013536 Bacterial transcriptional regulator; Region: IclR; pfam01614 1215088013537 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 1215088013538 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1215088013539 NAD binding site [chemical binding]; other site 1215088013540 homodimer interface [polypeptide binding]; other site 1215088013541 active site 1215088013542 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1215088013543 LrgB-like family; Region: LrgB; pfam04172 1215088013544 LrgA family; Region: LrgA; pfam03788 1215088013545 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088013546 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088013547 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1215088013548 putative dimerization interface [polypeptide binding]; other site 1215088013549 flavodoxin; Provisional; Region: PRK05723 1215088013550 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 1215088013551 PAS domain; Region: PAS_9; pfam13426 1215088013552 putative active site [active] 1215088013553 heme pocket [chemical binding]; other site 1215088013554 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1215088013555 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1215088013556 DNA binding residues [nucleotide binding] 1215088013557 B12 binding domain; Region: B12-binding_2; pfam02607 1215088013558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1215088013559 dihydromonapterin reductase; Provisional; Region: PRK06483 1215088013560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088013561 NAD(P) binding site [chemical binding]; other site 1215088013562 active site 1215088013563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 1215088013564 HopJ type III effector protein; Region: HopJ; pfam08888 1215088013565 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1215088013566 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1215088013567 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1215088013568 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1215088013569 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1215088013570 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1215088013571 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 1215088013572 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1215088013573 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 1215088013574 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 1215088013575 dimer interface [polypeptide binding]; other site 1215088013576 active site 1215088013577 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1215088013578 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1215088013579 THF binding site; other site 1215088013580 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 1215088013581 substrate binding site [chemical binding]; other site 1215088013582 THF binding site; other site 1215088013583 zinc-binding site [ion binding]; other site 1215088013584 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; cl00246 1215088013585 FAD binding site [chemical binding]; other site 1215088013586 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 1215088013587 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 1215088013588 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 1215088013589 P-loop, Walker A motif; other site 1215088013590 Base recognition motif; other site 1215088013591 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1215088013592 Uncharacterized small protein [Function unknown]; Region: COG2879 1215088013593 carbon starvation protein A; Provisional; Region: PRK15015 1215088013594 Carbon starvation protein CstA; Region: CstA; pfam02554 1215088013595 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1215088013596 xanthine permease; Region: pbuX; TIGR03173 1215088013597 DNA repair protein RadA; Provisional; Region: PRK11823 1215088013598 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 1215088013599 Walker A motif; other site 1215088013600 ATP binding site [chemical binding]; other site 1215088013601 Walker B motif; other site 1215088013602 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1215088013603 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1215088013604 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1215088013605 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 1215088013606 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1215088013607 FAD binding pocket [chemical binding]; other site 1215088013608 FAD binding motif [chemical binding]; other site 1215088013609 phosphate binding motif [ion binding]; other site 1215088013610 beta-alpha-beta structure motif; other site 1215088013611 NAD binding pocket [chemical binding]; other site 1215088013612 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1215088013613 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 1215088013614 DNA binding residues [nucleotide binding] 1215088013615 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1215088013616 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 1215088013617 S-adenosylmethionine binding site [chemical binding]; other site 1215088013618 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 1215088013619 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1215088013620 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1215088013621 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1215088013622 H+ Antiporter protein; Region: 2A0121; TIGR00900 1215088013623 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1215088013624 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1215088013625 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 1215088013626 S-adenosylmethionine binding site [chemical binding]; other site 1215088013627 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1215088013628 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 1215088013629 heterodimer interface [polypeptide binding]; other site 1215088013630 active site 1215088013631 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 1215088013632 heterodimer interface [polypeptide binding]; other site 1215088013633 multimer interface [polypeptide binding]; other site 1215088013634 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1215088013635 active site 1215088013636 Predicted metalloprotease [General function prediction only]; Region: COG2321 1215088013637 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1215088013638 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 1215088013639 dimerization interface [polypeptide binding]; other site 1215088013640 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088013641 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088013642 dimer interface [polypeptide binding]; other site 1215088013643 putative CheW interface [polypeptide binding]; other site 1215088013644 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1215088013645 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1215088013646 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088013647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088013648 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 1215088013649 dimerization interface [polypeptide binding]; other site 1215088013650 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1215088013651 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1215088013652 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1215088013653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088013654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088013655 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 1215088013656 dimerization interface [polypeptide binding]; other site 1215088013657 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1215088013658 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1215088013659 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1215088013660 Putative methyltransferase; Region: Methyltransf_20; pfam12147 1215088013661 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1215088013662 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1215088013663 active site 1215088013664 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 1215088013665 active site 1215088013666 catalytic residues [active] 1215088013667 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1215088013668 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1215088013669 putative acyl-acceptor binding pocket; other site 1215088013670 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1215088013671 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1215088013672 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1215088013673 putative metal binding site [ion binding]; other site 1215088013674 putative homodimer interface [polypeptide binding]; other site 1215088013675 putative homotetramer interface [polypeptide binding]; other site 1215088013676 putative homodimer-homodimer interface [polypeptide binding]; other site 1215088013677 putative allosteric switch controlling residues; other site 1215088013678 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1215088013679 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1215088013680 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1215088013681 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1215088013682 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1215088013683 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1215088013684 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1215088013685 tetrameric interface [polypeptide binding]; other site 1215088013686 NAD binding site [chemical binding]; other site 1215088013687 catalytic residues [active] 1215088013688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088013689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088013690 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 1215088013691 dimerization interface [polypeptide binding]; other site 1215088013692 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1215088013693 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088013694 ligand binding site [chemical binding]; other site 1215088013695 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 1215088013696 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088013697 metal binding site [ion binding]; metal-binding site 1215088013698 active site 1215088013699 I-site; other site 1215088013700 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 1215088013701 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1215088013702 AAA domain; Region: AAA_30; pfam13604 1215088013703 Family description; Region: UvrD_C_2; pfam13538 1215088013704 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1215088013705 Family description; Region: UvrD_C_2; pfam13538 1215088013706 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1215088013707 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1215088013708 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1215088013709 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1215088013710 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 1215088013711 Moco binding site; other site 1215088013712 metal coordination site [ion binding]; other site 1215088013713 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1215088013714 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1215088013715 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1215088013716 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1215088013717 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1215088013718 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1215088013719 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1215088013720 putative valine binding site [chemical binding]; other site 1215088013721 dimer interface [polypeptide binding]; other site 1215088013722 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1215088013723 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1215088013724 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1215088013725 PYR/PP interface [polypeptide binding]; other site 1215088013726 dimer interface [polypeptide binding]; other site 1215088013727 TPP binding site [chemical binding]; other site 1215088013728 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1215088013729 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 1215088013730 TPP-binding site [chemical binding]; other site 1215088013731 dimer interface [polypeptide binding]; other site 1215088013732 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1215088013733 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 1215088013734 TPR motif; other site 1215088013735 binding surface 1215088013736 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1215088013737 Transglycosylase; Region: Transgly; pfam00912 1215088013738 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1215088013739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1215088013740 AAA domain; Region: AAA_33; pfam13671 1215088013741 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 1215088013742 active site 1215088013743 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1215088013744 Protein of unknown function, DUF399; Region: DUF399; cl01139 1215088013745 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1215088013746 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1215088013747 Walker A/P-loop; other site 1215088013748 ATP binding site [chemical binding]; other site 1215088013749 Q-loop/lid; other site 1215088013750 ABC transporter signature motif; other site 1215088013751 Walker B; other site 1215088013752 D-loop; other site 1215088013753 H-loop/switch region; other site 1215088013754 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1215088013755 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 1215088013756 ABC-ATPase subunit interface; other site 1215088013757 dimer interface [polypeptide binding]; other site 1215088013758 putative PBP binding regions; other site 1215088013759 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 1215088013760 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1215088013761 intersubunit interface [polypeptide binding]; other site 1215088013762 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 1215088013763 iron-sulfur cluster [ion binding]; other site 1215088013764 [2Fe-2S] cluster binding site [ion binding]; other site 1215088013765 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1215088013766 hypothetical protein; Provisional; Region: PRK08960 1215088013767 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 1215088013768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088013769 homodimer interface [polypeptide binding]; other site 1215088013770 catalytic residue [active] 1215088013771 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1215088013772 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1215088013773 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1215088013774 active site 1215088013775 HIGH motif; other site 1215088013776 nucleotide binding site [chemical binding]; other site 1215088013777 KMSKS motif; other site 1215088013778 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1215088013779 Na binding site [ion binding]; other site 1215088013780 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1215088013781 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 1215088013782 putative active site [active] 1215088013783 heme pocket [chemical binding]; other site 1215088013784 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 1215088013785 dimer interface [polypeptide binding]; other site 1215088013786 phosphorylation site [posttranslational modification] 1215088013787 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 1215088013788 ATP binding site [chemical binding]; other site 1215088013789 Mg2+ binding site [ion binding]; other site 1215088013790 G-X-G motif; other site 1215088013791 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1215088013792 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088013793 active site 1215088013794 phosphorylation site [posttranslational modification] 1215088013795 intermolecular recognition site; other site 1215088013796 dimerization interface [polypeptide binding]; other site 1215088013797 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 1215088013798 Walker A motif; other site 1215088013799 ATP binding site [chemical binding]; other site 1215088013800 Walker B motif; other site 1215088013801 arginine finger; other site 1215088013802 poly(A) polymerase; Region: pcnB; TIGR01942 1215088013803 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1215088013804 active site 1215088013805 NTP binding site [chemical binding]; other site 1215088013806 metal binding triad [ion binding]; metal-binding site 1215088013807 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1215088013808 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1215088013809 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 1215088013810 catalytic center binding site [active] 1215088013811 ATP binding site [chemical binding]; other site 1215088013812 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 1215088013813 oligomerization interface [polypeptide binding]; other site 1215088013814 active site 1215088013815 metal binding site [ion binding]; metal-binding site 1215088013816 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1215088013817 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1215088013818 active site 1215088013819 ATP-binding site [chemical binding]; other site 1215088013820 pantoate-binding site; other site 1215088013821 HXXH motif; other site 1215088013822 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1215088013823 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 1215088013824 active site 1215088013825 dimer interface [polypeptide binding]; other site 1215088013826 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 1215088013827 dimer interface [polypeptide binding]; other site 1215088013828 active site 1215088013829 acetyl-CoA synthetase; Provisional; Region: PRK00174 1215088013830 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1215088013831 active site 1215088013832 CoA binding site [chemical binding]; other site 1215088013833 acyl-activating enzyme (AAE) consensus motif; other site 1215088013834 AMP binding site [chemical binding]; other site 1215088013835 acetate binding site [chemical binding]; other site 1215088013836 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1215088013837 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1215088013838 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1215088013839 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1215088013840 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1215088013841 ligand binding site [chemical binding]; other site 1215088013842 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 1215088013843 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1215088013844 active site 1215088013845 metal binding site [ion binding]; metal-binding site 1215088013846 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1215088013847 BON domain; Region: BON; pfam04972 1215088013848 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1215088013849 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1215088013850 RNase E interface [polypeptide binding]; other site 1215088013851 trimer interface [polypeptide binding]; other site 1215088013852 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1215088013853 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1215088013854 RNase E interface [polypeptide binding]; other site 1215088013855 trimer interface [polypeptide binding]; other site 1215088013856 active site 1215088013857 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 1215088013858 putative nucleic acid binding region [nucleotide binding]; other site 1215088013859 G-X-X-G motif; other site 1215088013860 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 1215088013861 RNA binding site [nucleotide binding]; other site 1215088013862 domain interface; other site 1215088013863 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 1215088013864 16S/18S rRNA binding site [nucleotide binding]; other site 1215088013865 S13e-L30e interaction site [polypeptide binding]; other site 1215088013866 25S rRNA binding site [nucleotide binding]; other site 1215088013867 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1215088013868 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1215088013869 RNA binding site [nucleotide binding]; other site 1215088013870 active site 1215088013871 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1215088013872 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1215088013873 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1215088013874 translation initiation factor IF-2; Region: IF-2; TIGR00487 1215088013875 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1215088013876 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1215088013877 G1 box; other site 1215088013878 putative GEF interaction site [polypeptide binding]; other site 1215088013879 GTP/Mg2+ binding site [chemical binding]; other site 1215088013880 Switch I region; other site 1215088013881 G2 box; other site 1215088013882 G3 box; other site 1215088013883 Switch II region; other site 1215088013884 G4 box; other site 1215088013885 G5 box; other site 1215088013886 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 1215088013887 Translation-initiation factor 2; Region: IF-2; pfam11987 1215088013888 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 1215088013889 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1215088013890 NusA N-terminal domain; Region: NusA_N; pfam08529 1215088013891 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 1215088013892 RNA binding site [nucleotide binding]; other site 1215088013893 homodimer interface [polypeptide binding]; other site 1215088013894 NusA-like KH domain; Region: KH_5; pfam13184 1215088013895 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 1215088013896 G-X-X-G motif; other site 1215088013897 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1215088013898 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1215088013899 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1215088013900 Sm and related proteins; Region: Sm_like; cl00259 1215088013901 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1215088013902 putative oligomer interface [polypeptide binding]; other site 1215088013903 putative RNA binding site [nucleotide binding]; other site 1215088013904 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 1215088013905 triosephosphate isomerase; Provisional; Region: PRK14567 1215088013906 substrate binding site [chemical binding]; other site 1215088013907 dimer interface [polypeptide binding]; other site 1215088013908 catalytic triad [active] 1215088013909 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1215088013910 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 1215088013911 active site 1215088013912 substrate binding site [chemical binding]; other site 1215088013913 metal binding site [ion binding]; metal-binding site 1215088013914 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 1215088013915 dihydropteroate synthase; Region: DHPS; TIGR01496 1215088013916 substrate binding pocket [chemical binding]; other site 1215088013917 dimer interface [polypeptide binding]; other site 1215088013918 inhibitor binding site; inhibition site 1215088013919 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1215088013920 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 1215088013921 Walker A motif; other site 1215088013922 ATP binding site [chemical binding]; other site 1215088013923 Walker B motif; other site 1215088013924 arginine finger; other site 1215088013925 Peptidase family M41; Region: Peptidase_M41; pfam01434 1215088013926 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1215088013927 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 1215088013928 S-adenosylmethionine binding site [chemical binding]; other site 1215088013929 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 1215088013930 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1215088013931 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1215088013932 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1215088013933 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1215088013934 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1215088013935 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1215088013936 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1215088013937 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1215088013938 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1215088013939 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 1215088013940 IMP binding site; other site 1215088013941 dimer interface [polypeptide binding]; other site 1215088013942 interdomain contacts; other site 1215088013943 partial ornithine binding site; other site 1215088013944 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1215088013945 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1215088013946 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1215088013947 catalytic site [active] 1215088013948 subunit interface [polypeptide binding]; other site 1215088013949 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1215088013950 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1215088013951 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1215088013952 chaperone protein DnaJ; Provisional; Region: PRK10767 1215088013953 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 1215088013954 HSP70 interaction site [polypeptide binding]; other site 1215088013955 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1215088013956 substrate binding site [polypeptide binding]; other site 1215088013957 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1215088013958 Zn binding sites [ion binding]; other site 1215088013959 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1215088013960 dimer interface [polypeptide binding]; other site 1215088013961 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1215088013962 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1215088013963 nucleotide binding site [chemical binding]; other site 1215088013964 NEF interaction site [polypeptide binding]; other site 1215088013965 SBD interface [polypeptide binding]; other site 1215088013966 NAD-specific glutamate dehydrogenase; Region: NAD-GH; pfam10712 1215088013967 GrpE; Region: GrpE; pfam01025 1215088013968 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 1215088013969 dimer interface [polypeptide binding]; other site 1215088013970 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1215088013971 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1215088013972 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1215088013973 Walker A/P-loop; other site 1215088013974 ATP binding site [chemical binding]; other site 1215088013975 Q-loop/lid; other site 1215088013976 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1215088013977 ABC transporter signature motif; other site 1215088013978 Walker B; other site 1215088013979 D-loop; other site 1215088013980 H-loop/switch region; other site 1215088013981 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1215088013982 metal binding site 2 [ion binding]; metal-binding site 1215088013983 putative DNA binding helix; other site 1215088013984 metal binding site 1 [ion binding]; metal-binding site 1215088013985 dimer interface [polypeptide binding]; other site 1215088013986 structural Zn2+ binding site [ion binding]; other site 1215088013987 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1215088013988 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1215088013989 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1215088013990 putative coenzyme Q binding site [chemical binding]; other site 1215088013991 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 1215088013992 SmpB-tmRNA interface; other site 1215088013993 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1215088013994 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088013995 DNA-binding site [nucleotide binding]; DNA binding site 1215088013996 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1215088013997 glycolate transporter; Provisional; Region: PRK09695 1215088013998 L-lactate permease; Region: Lactate_perm; cl00701 1215088013999 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1215088014000 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1215088014001 active site 1215088014002 substrate binding site [chemical binding]; other site 1215088014003 FMN binding site [chemical binding]; other site 1215088014004 putative catalytic residues [active] 1215088014005 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1215088014006 FAD binding domain; Region: FAD_binding_4; pfam01565 1215088014007 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 1215088014008 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1215088014009 integrase; Provisional; Region: PRK09692 1215088014010 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 1215088014011 active site 1215088014012 Int/Topo IB signature motif; other site 1215088014013 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 1215088014014 putative phage-type endonuclease; Region: phage_rel_nuc; TIGR03033 1215088014015 hypothetical protein; Reviewed; Region: PRK00024 1215088014016 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1215088014017 MPN+ (JAMM) motif; other site 1215088014018 Zinc-binding site [ion binding]; other site 1215088014019 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 1215088014020 Protein of unknown function (DUF499); Region: DUF499; pfam04465 1215088014021 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1215088014022 DNA protecting protein DprA; Region: dprA; TIGR00732 1215088014023 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 1215088014024 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1215088014025 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 1215088014026 ATP binding site [chemical binding]; other site 1215088014027 putative Mg++ binding site [ion binding]; other site 1215088014028 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 1215088014029 nucleotide binding region [chemical binding]; other site 1215088014030 ATP-binding site [chemical binding]; other site 1215088014031 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1215088014032 active site 1215088014033 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 1215088014034 TIGR02646 family protein; Region: TIGR02646 1215088014035 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 1215088014036 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088014037 Walker A/P-loop; other site 1215088014038 ATP binding site [chemical binding]; other site 1215088014039 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1215088014040 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1215088014041 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 1215088014042 ATP binding site [chemical binding]; other site 1215088014043 putative Mg++ binding site [ion binding]; other site 1215088014044 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1215088014045 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 1215088014046 nucleotide binding region [chemical binding]; other site 1215088014047 ATP-binding site [chemical binding]; other site 1215088014048 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 1215088014049 WYL domain; Region: WYL; pfam13280 1215088014050 WYL domain; Region: WYL; pfam13280 1215088014051 Mu-like prophage protein [General function prediction only]; Region: COG3941 1215088014052 Flagellin N-methylase; Region: FliB; pfam03692 1215088014053 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1215088014054 Protein of unknown function DUF262; Region: DUF262; pfam03235 1215088014055 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1215088014056 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1215088014057 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 1215088014058 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1215088014059 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 1215088014060 DNA binding site [nucleotide binding] 1215088014061 active site 1215088014062 Int/Topo IB signature motif; other site 1215088014063 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088014064 putative substrate translocation pore; other site 1215088014065 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088014066 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088014067 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 1215088014068 dimerization interface [polypeptide binding]; other site 1215088014069 substrate binding pocket [chemical binding]; other site 1215088014070 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1215088014071 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1215088014072 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 1215088014073 active site 1215088014074 tetramer interface [polypeptide binding]; other site 1215088014075 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088014076 D-galactonate transporter; Region: 2A0114; TIGR00893 1215088014077 putative substrate translocation pore; other site 1215088014078 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1215088014079 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088014080 DNA-binding site [nucleotide binding]; DNA binding site 1215088014081 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1215088014082 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1215088014083 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1215088014084 putative NAD(P) binding site [chemical binding]; other site 1215088014085 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1215088014086 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 1215088014087 active site 1215088014088 motif I; other site 1215088014089 motif II; other site 1215088014090 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1215088014091 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 1215088014092 active site 1215088014093 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 1215088014094 catalytic triad [active] 1215088014095 dimer interface [polypeptide binding]; other site 1215088014096 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1215088014097 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1215088014098 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 1215088014099 catalytic core [active] 1215088014100 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1215088014101 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1215088014102 putative active site [active] 1215088014103 Zn binding site [ion binding]; other site 1215088014104 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1215088014105 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1215088014106 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 1215088014107 ATP binding site [chemical binding]; other site 1215088014108 Mg++ binding site [ion binding]; other site 1215088014109 motif III; other site 1215088014110 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 1215088014111 nucleotide binding region [chemical binding]; other site 1215088014112 ATP-binding site [chemical binding]; other site 1215088014113 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1215088014114 EamA-like transporter family; Region: EamA; pfam00892 1215088014115 EamA-like transporter family; Region: EamA; pfam00892 1215088014116 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1215088014117 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 1215088014118 putative DNA binding site [nucleotide binding]; other site 1215088014119 putative Zn2+ binding site [ion binding]; other site 1215088014120 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088014121 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1215088014122 active site 1215088014123 catalytic site [active] 1215088014124 substrate binding site [chemical binding]; other site 1215088014125 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1215088014126 LabA_like proteins; Region: LabA; cd10911 1215088014127 putative metal binding site [ion binding]; other site 1215088014128 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 1215088014129 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 1215088014130 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1215088014131 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 1215088014132 nucleotide binding region [chemical binding]; other site 1215088014133 ATP-binding site [chemical binding]; other site 1215088014134 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 1215088014135 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1215088014136 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 1215088014137 ATP binding site [chemical binding]; other site 1215088014138 putative Mg++ binding site [ion binding]; other site 1215088014139 Cation efflux family; Region: Cation_efflux; cl00316 1215088014140 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1215088014141 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1215088014142 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 1215088014143 putative DNA binding site [nucleotide binding]; other site 1215088014144 putative Zn2+ binding site [ion binding]; other site 1215088014145 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088014146 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1215088014147 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1215088014148 pseudouridine synthase; Region: TIGR00093 1215088014149 active site 1215088014150 AMP nucleosidase; Provisional; Region: PRK08292 1215088014151 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1215088014152 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1215088014153 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088014154 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1215088014155 active site 1215088014156 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1215088014157 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1215088014158 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 1215088014159 dimer interface [polypeptide binding]; other site 1215088014160 phosphorylation site [posttranslational modification] 1215088014161 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 1215088014162 ATP binding site [chemical binding]; other site 1215088014163 Mg2+ binding site [ion binding]; other site 1215088014164 G-X-G motif; other site 1215088014165 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 1215088014166 dimer interface [polypeptide binding]; other site 1215088014167 substrate binding site [chemical binding]; other site 1215088014168 ATP binding site [chemical binding]; other site 1215088014169 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 1215088014170 thiamine phosphate binding site [chemical binding]; other site 1215088014171 active site 1215088014172 pyrophosphate binding site [ion binding]; other site 1215088014173 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1215088014174 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 1215088014175 inhibitor-cofactor binding pocket; inhibition site 1215088014176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088014177 catalytic residue [active] 1215088014178 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1215088014179 Sel1-like repeats; Region: SEL1; smart00671 1215088014180 Sel1-like repeats; Region: SEL1; smart00671 1215088014181 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 1215088014182 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1215088014183 PhoH-like protein; Region: PhoH; pfam02562 1215088014184 metal-binding heat shock protein; Provisional; Region: PRK00016 1215088014185 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1215088014186 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 1215088014187 Transporter associated domain; Region: CorC_HlyC; smart01091 1215088014188 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1215088014189 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1215088014190 putative active site [active] 1215088014191 catalytic triad [active] 1215088014192 putative dimer interface [polypeptide binding]; other site 1215088014193 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1215088014194 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 1215088014195 putative active site [active] 1215088014196 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1215088014197 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1215088014198 HIGH motif; other site 1215088014199 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1215088014200 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1215088014201 active site 1215088014202 KMSKS motif; other site 1215088014203 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1215088014204 tRNA binding surface [nucleotide binding]; other site 1215088014205 Lipopolysaccharide-assembly; Region: LptE; cl01125 1215088014206 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1215088014207 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1215088014208 Domain of unknown function; Region: DUF331; cl01149 1215088014209 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1215088014210 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 1215088014211 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1215088014212 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1215088014213 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1215088014214 dimer interface [polypeptide binding]; other site 1215088014215 catalytic triad [active] 1215088014216 lipoyl synthase; Provisional; Region: PRK05481 1215088014217 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 1215088014218 FeS/SAM binding site; other site 1215088014219 lipoate-protein ligase B; Provisional; Region: PRK14342 1215088014220 hypothetical protein; Provisional; Region: PRK00341 1215088014221 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1215088014222 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1215088014223 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1215088014224 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1215088014225 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1215088014226 Sporulation related domain; Region: SPOR; pfam05036 1215088014227 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1215088014228 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 1215088014229 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1215088014230 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1215088014231 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1215088014232 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1215088014233 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1215088014234 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1215088014235 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1215088014236 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1215088014237 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1215088014238 active site 1215088014239 (T/H)XGH motif; other site 1215088014240 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1215088014241 putative catalytic cysteine [active] 1215088014242 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1215088014243 active site 1215088014244 DNA binding site [nucleotide binding] 1215088014245 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1215088014246 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1215088014247 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 1215088014248 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1215088014249 active site 1215088014250 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1215088014251 LrgB-like family; Region: LrgB; pfam04172 1215088014252 LrgA family; Region: LrgA; cl00608 1215088014253 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 1215088014254 putative active site [active] 1215088014255 putative catalytic site [active] 1215088014256 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1215088014257 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1215088014258 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1215088014259 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1215088014260 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1215088014261 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 1215088014262 FMN binding site [chemical binding]; other site 1215088014263 active site 1215088014264 catalytic residues [active] 1215088014265 substrate binding site [chemical binding]; other site 1215088014266 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1215088014267 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1215088014268 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1215088014269 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 1215088014270 purine monophosphate binding site [chemical binding]; other site 1215088014271 dimer interface [polypeptide binding]; other site 1215088014272 putative catalytic residues [active] 1215088014273 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1215088014274 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1215088014275 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1215088014276 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1215088014277 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1215088014278 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1215088014279 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1215088014280 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1215088014281 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 1215088014282 dimer interface [polypeptide binding]; other site 1215088014283 phosphorylation site [posttranslational modification] 1215088014284 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 1215088014285 ATP binding site [chemical binding]; other site 1215088014286 Mg2+ binding site [ion binding]; other site 1215088014287 G-X-G motif; other site 1215088014288 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088014289 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088014290 active site 1215088014291 phosphorylation site [posttranslational modification] 1215088014292 intermolecular recognition site; other site 1215088014293 dimerization interface [polypeptide binding]; other site 1215088014294 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088014295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088014296 active site 1215088014297 phosphorylation site [posttranslational modification] 1215088014298 intermolecular recognition site; other site 1215088014299 dimerization interface [polypeptide binding]; other site 1215088014300 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1215088014301 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1215088014302 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1215088014303 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1215088014304 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1215088014305 active site 1215088014306 SAM binding site [chemical binding]; other site 1215088014307 homodimer interface [polypeptide binding]; other site 1215088014308 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1215088014309 homodimer interface [polypeptide binding]; other site 1215088014310 active site 1215088014311 SAM binding site [chemical binding]; other site 1215088014312 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1215088014313 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1215088014314 precorrin-3B synthase; Region: CobG; TIGR02435 1215088014315 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1215088014316 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1215088014317 active site 1215088014318 putative homodimer interface [polypeptide binding]; other site 1215088014319 SAM binding site [chemical binding]; other site 1215088014320 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1215088014321 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 1215088014322 S-adenosylmethionine binding site [chemical binding]; other site 1215088014323 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1215088014324 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1215088014325 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1215088014326 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1215088014327 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1215088014328 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 1215088014329 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1215088014330 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1215088014331 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1215088014332 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 1215088014333 N-terminal plug; other site 1215088014334 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1215088014335 ligand-binding site [chemical binding]; other site 1215088014336 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1215088014337 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1215088014338 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1215088014339 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1215088014340 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1215088014341 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1215088014342 Spore germination protein; Region: Spore_permease; cl17796 1215088014343 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1215088014344 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1215088014345 putative ligand binding site [chemical binding]; other site 1215088014346 HEAT repeats; Region: HEAT_2; pfam13646 1215088014347 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 1215088014348 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1215088014349 TM-ABC transporter signature motif; other site 1215088014350 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1215088014351 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 1215088014352 TM-ABC transporter signature motif; other site 1215088014353 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1215088014354 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1215088014355 Walker A/P-loop; other site 1215088014356 ATP binding site [chemical binding]; other site 1215088014357 Q-loop/lid; other site 1215088014358 ABC transporter signature motif; other site 1215088014359 Walker B; other site 1215088014360 D-loop; other site 1215088014361 H-loop/switch region; other site 1215088014362 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1215088014363 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1215088014364 Walker A/P-loop; other site 1215088014365 ATP binding site [chemical binding]; other site 1215088014366 Q-loop/lid; other site 1215088014367 ABC transporter signature motif; other site 1215088014368 Walker B; other site 1215088014369 D-loop; other site 1215088014370 H-loop/switch region; other site 1215088014371 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1215088014372 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088014373 Coenzyme A binding pocket [chemical binding]; other site 1215088014374 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 1215088014375 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1215088014376 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1215088014377 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 1215088014378 HSP70 interaction site [polypeptide binding]; other site 1215088014379 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1215088014380 substrate binding site [polypeptide binding]; other site 1215088014381 dimer interface [polypeptide binding]; other site 1215088014382 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1215088014383 putative chaperone; Provisional; Region: PRK11678 1215088014384 nucleotide binding site [chemical binding]; other site 1215088014385 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1215088014386 SBD interface [polypeptide binding]; other site 1215088014387 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1215088014388 hypothetical protein; Provisional; Region: PRK11505 1215088014389 psiF repeat; Region: PsiF_repeat; pfam07769 1215088014390 psiF repeat; Region: PsiF_repeat; pfam07769 1215088014391 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1215088014392 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1215088014393 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088014394 EamA-like transporter family; Region: EamA; pfam00892 1215088014395 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1215088014396 EamA-like transporter family; Region: EamA; pfam00892 1215088014397 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1215088014398 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 1215088014399 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1215088014400 Ferritin-like domain; Region: Ferritin; pfam00210 1215088014401 dinuclear metal binding motif [ion binding]; other site 1215088014402 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1215088014403 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1215088014404 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1215088014405 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1215088014406 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088014407 dimerization interface [polypeptide binding]; other site 1215088014408 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 1215088014409 putative active cleft [active] 1215088014410 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1215088014411 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1215088014412 putative NAD(P) binding site [chemical binding]; other site 1215088014413 homotetramer interface [polypeptide binding]; other site 1215088014414 homodimer interface [polypeptide binding]; other site 1215088014415 active site 1215088014416 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1215088014417 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1215088014418 Walker A/P-loop; other site 1215088014419 ATP binding site [chemical binding]; other site 1215088014420 Q-loop/lid; other site 1215088014421 ABC transporter signature motif; other site 1215088014422 Walker B; other site 1215088014423 D-loop; other site 1215088014424 H-loop/switch region; other site 1215088014425 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1215088014426 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1215088014427 Walker A/P-loop; other site 1215088014428 ATP binding site [chemical binding]; other site 1215088014429 Q-loop/lid; other site 1215088014430 ABC transporter signature motif; other site 1215088014431 Walker B; other site 1215088014432 D-loop; other site 1215088014433 H-loop/switch region; other site 1215088014434 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1215088014435 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1215088014436 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 1215088014437 TM-ABC transporter signature motif; other site 1215088014438 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1215088014439 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 1215088014440 TM-ABC transporter signature motif; other site 1215088014441 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1215088014442 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 1215088014443 dimerization interface [polypeptide binding]; other site 1215088014444 ligand binding site [chemical binding]; other site 1215088014445 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1215088014446 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 1215088014447 active site 1215088014448 NAD+ synthetase; Region: nadE; TIGR00552 1215088014449 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 1215088014450 homodimer interface [polypeptide binding]; other site 1215088014451 NAD binding pocket [chemical binding]; other site 1215088014452 ATP binding pocket [chemical binding]; other site 1215088014453 Mg binding site [ion binding]; other site 1215088014454 active-site loop [active] 1215088014455 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1215088014456 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1215088014457 hypothetical protein; Provisional; Region: PRK01254 1215088014458 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1215088014459 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1215088014460 replicative DNA helicase; Provisional; Region: PRK05748 1215088014461 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1215088014462 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 1215088014463 Walker A motif; other site 1215088014464 ATP binding site [chemical binding]; other site 1215088014465 Walker B motif; other site 1215088014466 DNA binding loops [nucleotide binding] 1215088014467 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1215088014468 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1215088014469 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1215088014470 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1215088014471 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1215088014472 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1215088014473 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1215088014474 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1215088014475 ribonuclease R; Region: RNase_R; TIGR02063 1215088014476 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1215088014477 RNB domain; Region: RNB; pfam00773 1215088014478 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 1215088014479 RNA binding site [nucleotide binding]; other site 1215088014480 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1215088014481 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1215088014482 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1215088014483 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 1215088014484 dimer interface [polypeptide binding]; other site 1215088014485 conserved gate region; other site 1215088014486 putative PBP binding loops; other site 1215088014487 ABC-ATPase subunit interface; other site 1215088014488 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1215088014489 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 1215088014490 dimer interface [polypeptide binding]; other site 1215088014491 conserved gate region; other site 1215088014492 putative PBP binding loops; other site 1215088014493 ABC-ATPase subunit interface; other site 1215088014494 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 1215088014495 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1215088014496 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 1215088014497 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1215088014498 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1215088014499 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 1215088014500 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088014501 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088014502 dimer interface [polypeptide binding]; other site 1215088014503 putative CheW interface [polypeptide binding]; other site 1215088014504 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1215088014505 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 1215088014506 GDP-binding site [chemical binding]; other site 1215088014507 ACT binding site; other site 1215088014508 IMP binding site; other site 1215088014509 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1215088014510 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 1215088014511 dimer interface [polypeptide binding]; other site 1215088014512 motif 1; other site 1215088014513 active site 1215088014514 motif 2; other site 1215088014515 motif 3; other site 1215088014516 FtsH protease regulator HflC; Provisional; Region: PRK11029 1215088014517 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 1215088014518 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1215088014519 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 1215088014520 HflK protein; Region: hflK; TIGR01933 1215088014521 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1215088014522 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1215088014523 HflX GTPase family; Region: HflX; cd01878 1215088014524 G1 box; other site 1215088014525 GTP/Mg2+ binding site [chemical binding]; other site 1215088014526 Switch I region; other site 1215088014527 G2 box; other site 1215088014528 G3 box; other site 1215088014529 Switch II region; other site 1215088014530 G4 box; other site 1215088014531 G5 box; other site 1215088014532 bacterial Hfq-like; Region: Hfq; cd01716 1215088014533 hexamer interface [polypeptide binding]; other site 1215088014534 Sm1 motif; other site 1215088014535 RNA binding site [nucleotide binding]; other site 1215088014536 Sm2 motif; other site 1215088014537 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1215088014538 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1215088014539 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1215088014540 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 1215088014541 ATP binding site [chemical binding]; other site 1215088014542 Mg2+ binding site [ion binding]; other site 1215088014543 G-X-G motif; other site 1215088014544 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 1215088014545 ATP binding site [chemical binding]; other site 1215088014546 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1215088014547 AMIN domain; Region: AMIN; pfam11741 1215088014548 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 1215088014549 active site 1215088014550 metal binding site [ion binding]; metal-binding site 1215088014551 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1215088014552 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1215088014553 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 1215088014554 putative ATP binding site [chemical binding]; other site 1215088014555 putative substrate binding site [chemical binding]; other site 1215088014556 epoxyqueuosine reductase; Region: TIGR00276 1215088014557 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1215088014558 Predicted membrane protein [Function unknown]; Region: COG2860 1215088014559 UPF0126 domain; Region: UPF0126; pfam03458 1215088014560 UPF0126 domain; Region: UPF0126; pfam03458 1215088014561 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1215088014562 catalytic site [active] 1215088014563 putative active site [active] 1215088014564 putative substrate binding site [chemical binding]; other site 1215088014565 dimer interface [polypeptide binding]; other site 1215088014566 GTPase RsgA; Reviewed; Region: PRK12288 1215088014567 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 1215088014568 RNA binding site [nucleotide binding]; other site 1215088014569 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1215088014570 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1215088014571 GTP/Mg2+ binding site [chemical binding]; other site 1215088014572 G4 box; other site 1215088014573 G5 box; other site 1215088014574 G1 box; other site 1215088014575 Switch I region; other site 1215088014576 G2 box; other site 1215088014577 G3 box; other site 1215088014578 Switch II region; other site 1215088014579 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1215088014580 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1215088014581 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1215088014582 ligand binding site [chemical binding]; other site 1215088014583 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1215088014584 flagellar motor protein MotA; Validated; Region: PRK09110 1215088014585 HDOD domain; Region: HDOD; pfam08668 1215088014586 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1215088014587 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 1215088014588 active site residue [active] 1215088014589 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 1215088014590 active site residue [active] 1215088014591 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1215088014592 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1215088014593 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 1215088014594 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 1215088014595 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1215088014596 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 1215088014597 motif II; other site 1215088014598 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1215088014599 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1215088014600 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1215088014601 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1215088014602 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 1215088014603 CAP-like domain; other site 1215088014604 active site 1215088014605 primary dimer interface [polypeptide binding]; other site 1215088014606 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1215088014607 catalytic motif [active] 1215088014608 Catalytic residue [active] 1215088014609 SdiA-regulated; Region: SdiA-regulated; cd09971 1215088014610 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1215088014611 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 1215088014612 ATP binding site [chemical binding]; other site 1215088014613 Mg2+ binding site [ion binding]; other site 1215088014614 G-X-G motif; other site 1215088014615 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 1215088014616 anchoring element; other site 1215088014617 dimer interface [polypeptide binding]; other site 1215088014618 ATP binding site [chemical binding]; other site 1215088014619 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 1215088014620 active site 1215088014621 metal binding site [ion binding]; metal-binding site 1215088014622 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1215088014623 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1215088014624 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1215088014625 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1215088014626 active site 1215088014627 metal binding site [ion binding]; metal-binding site 1215088014628 hexamer interface [polypeptide binding]; other site 1215088014629 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 1215088014630 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1215088014631 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 1215088014632 dimer interface [polypeptide binding]; other site 1215088014633 ADP-ribose binding site [chemical binding]; other site 1215088014634 active site 1215088014635 nudix motif; other site 1215088014636 metal binding site [ion binding]; metal-binding site 1215088014637 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1215088014638 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1215088014639 Na binding site [ion binding]; other site 1215088014640 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1215088014641 ThiC-associated domain; Region: ThiC-associated; pfam13667 1215088014642 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1215088014643 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1215088014644 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1215088014645 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1215088014646 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 1215088014647 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088014648 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088014649 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 1215088014650 dimerization interface [polypeptide binding]; other site 1215088014651 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1215088014652 FAD dependent oxidoreductase; Region: DAO; pfam01266 1215088014653 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1215088014654 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 1215088014655 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1215088014656 active site 1215088014657 catalytic tetrad [active] 1215088014658 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1215088014659 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 1215088014660 putative ribose interaction site [chemical binding]; other site 1215088014661 putative ADP binding site [chemical binding]; other site 1215088014662 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1215088014663 active site 1215088014664 nucleotide binding site [chemical binding]; other site 1215088014665 HIGH motif; other site 1215088014666 KMSKS motif; other site 1215088014667 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1215088014668 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1215088014669 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1215088014670 Walker A/P-loop; other site 1215088014671 ATP binding site [chemical binding]; other site 1215088014672 Q-loop/lid; other site 1215088014673 ABC transporter signature motif; other site 1215088014674 Walker B; other site 1215088014675 D-loop; other site 1215088014676 H-loop/switch region; other site 1215088014677 O-Antigen ligase; Region: Wzy_C; pfam04932 1215088014678 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 1215088014679 active site 1215088014680 substrate binding site [chemical binding]; other site 1215088014681 ATP binding site [chemical binding]; other site 1215088014682 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 1215088014683 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1215088014684 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1215088014685 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1215088014686 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1215088014687 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1215088014688 Mig-14; Region: Mig-14; pfam07395 1215088014689 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1215088014690 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 1215088014691 putative ADP-binding pocket [chemical binding]; other site 1215088014692 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1215088014693 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1215088014694 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1215088014695 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1215088014696 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1215088014697 Na binding site [ion binding]; other site 1215088014698 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1215088014699 Predicted transcriptional regulator [Transcription]; Region: COG3905 1215088014700 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1215088014701 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1215088014702 Glutamate binding site [chemical binding]; other site 1215088014703 NAD binding site [chemical binding]; other site 1215088014704 catalytic residues [active] 1215088014705 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1215088014706 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088014707 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1215088014708 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1215088014709 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1215088014710 active site 1215088014711 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1215088014712 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1215088014713 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1215088014714 putative transporter; Provisional; Region: PRK10504 1215088014715 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088014716 putative substrate translocation pore; other site 1215088014717 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1215088014718 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 1215088014719 ATP binding site [chemical binding]; other site 1215088014720 Mg++ binding site [ion binding]; other site 1215088014721 motif III; other site 1215088014722 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 1215088014723 nucleotide binding region [chemical binding]; other site 1215088014724 ATP-binding site [chemical binding]; other site 1215088014725 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1215088014726 putative RNA binding site [nucleotide binding]; other site 1215088014727 HI0933-like protein; Region: HI0933_like; pfam03486 1215088014728 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1215088014729 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1215088014730 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1215088014731 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1215088014732 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088014733 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 1215088014734 substrate binding pocket [chemical binding]; other site 1215088014735 membrane-bound complex binding site; other site 1215088014736 hinge residues; other site 1215088014737 Predicted acyltransferase [General function prediction only]; Region: ElaA; COG2153 1215088014738 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 1215088014739 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1215088014740 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088014741 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088014742 active site 1215088014743 phosphorylation site [posttranslational modification] 1215088014744 intermolecular recognition site; other site 1215088014745 dimerization interface [polypeptide binding]; other site 1215088014746 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 1215088014747 PAS domain; Region: PAS_9; pfam13426 1215088014748 putative active site [active] 1215088014749 heme pocket [chemical binding]; other site 1215088014750 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088014751 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088014752 metal binding site [ion binding]; metal-binding site 1215088014753 active site 1215088014754 I-site; other site 1215088014755 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 1215088014756 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 1215088014757 intersubunit interface [polypeptide binding]; other site 1215088014758 active site 1215088014759 zinc binding site [ion binding]; other site 1215088014760 Na+ binding site [ion binding]; other site 1215088014761 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1215088014762 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1215088014763 Phosphoglycerate kinase; Region: PGK; pfam00162 1215088014764 substrate binding site [chemical binding]; other site 1215088014765 hinge regions; other site 1215088014766 ADP binding site [chemical binding]; other site 1215088014767 catalytic site [active] 1215088014768 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 1215088014769 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1215088014770 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1215088014771 transketolase; Reviewed; Region: PRK12753 1215088014772 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 1215088014773 TPP-binding site [chemical binding]; other site 1215088014774 dimer interface [polypeptide binding]; other site 1215088014775 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 1215088014776 PYR/PP interface [polypeptide binding]; other site 1215088014777 dimer interface [polypeptide binding]; other site 1215088014778 TPP binding site [chemical binding]; other site 1215088014779 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1215088014780 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 1215088014781 putative DNA binding site [nucleotide binding]; other site 1215088014782 dimerization interface [polypeptide binding]; other site 1215088014783 putative Zn2+ binding site [ion binding]; other site 1215088014784 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1215088014785 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 1215088014786 S-adenosylmethionine binding site [chemical binding]; other site 1215088014787 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1215088014788 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1215088014789 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1215088014790 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1215088014791 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 1215088014792 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 1215088014793 nucleotide binding pocket [chemical binding]; other site 1215088014794 K-X-D-G motif; other site 1215088014795 catalytic site [active] 1215088014796 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1215088014797 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1215088014798 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1215088014799 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1215088014800 MltA specific insert domain; Region: MltA; smart00925 1215088014801 3D domain; Region: 3D; pfam06725 1215088014802 MAPEG family; Region: MAPEG; cl09190 1215088014803 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1215088014804 EamA-like transporter family; Region: EamA; pfam00892 1215088014805 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1215088014806 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1215088014807 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1215088014808 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 1215088014809 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1215088014810 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1215088014811 homotetramer interface [polypeptide binding]; other site 1215088014812 ligand binding site [chemical binding]; other site 1215088014813 catalytic site [active] 1215088014814 NAD binding site [chemical binding]; other site 1215088014815 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 1215088014816 FAD binding site [chemical binding]; other site 1215088014817 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088014818 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 1215088014819 substrate binding pocket [chemical binding]; other site 1215088014820 membrane-bound complex binding site; other site 1215088014821 hinge residues; other site 1215088014822 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 1215088014823 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1215088014824 ATP binding site [chemical binding]; other site 1215088014825 Mg++ binding site [ion binding]; other site 1215088014826 motif III; other site 1215088014827 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 1215088014828 nucleotide binding region [chemical binding]; other site 1215088014829 ATP-binding site [chemical binding]; other site 1215088014830 hypothetical protein; Provisional; Region: PRK03757 1215088014831 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1215088014832 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 1215088014833 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 1215088014834 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 1215088014835 inhibitor-cofactor binding pocket; inhibition site 1215088014836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088014837 catalytic residue [active] 1215088014838 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1215088014839 RNA methyltransferase, RsmE family; Region: TIGR00046 1215088014840 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1215088014841 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1215088014842 CheW-like domain; Region: CheW; pfam01584 1215088014843 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 1215088014844 putative binding surface; other site 1215088014845 active site 1215088014846 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 1215088014847 putative binding surface; other site 1215088014848 active site 1215088014849 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 1215088014850 putative binding surface; other site 1215088014851 active site 1215088014852 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1215088014853 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1215088014854 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 1215088014855 ATP binding site [chemical binding]; other site 1215088014856 Mg2+ binding site [ion binding]; other site 1215088014857 G-X-G motif; other site 1215088014858 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 1215088014859 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088014860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088014861 active site 1215088014862 phosphorylation site [posttranslational modification] 1215088014863 intermolecular recognition site; other site 1215088014864 dimerization interface [polypeptide binding]; other site 1215088014865 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1215088014866 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088014867 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088014868 dimer interface [polypeptide binding]; other site 1215088014869 putative CheW interface [polypeptide binding]; other site 1215088014870 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1215088014871 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088014872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088014873 active site 1215088014874 phosphorylation site [posttranslational modification] 1215088014875 intermolecular recognition site; other site 1215088014876 dimerization interface [polypeptide binding]; other site 1215088014877 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088014878 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088014879 active site 1215088014880 phosphorylation site [posttranslational modification] 1215088014881 intermolecular recognition site; other site 1215088014882 dimerization interface [polypeptide binding]; other site 1215088014883 glutathione synthetase; Provisional; Region: PRK05246 1215088014884 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1215088014885 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1215088014886 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1215088014887 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1215088014888 hypothetical protein; Validated; Region: PRK00228 1215088014889 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1215088014890 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1215088014891 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1215088014892 active site 1215088014893 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1215088014894 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1215088014895 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1215088014896 dihydroorotase; Validated; Region: pyrC; PRK09357 1215088014897 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 1215088014898 active site 1215088014899 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1215088014900 active site 1215088014901 HslU subunit interaction site [polypeptide binding]; other site 1215088014902 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1215088014903 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 1215088014904 Walker A motif; other site 1215088014905 ATP binding site [chemical binding]; other site 1215088014906 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1215088014907 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1215088014908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1215088014909 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1215088014910 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1215088014911 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 1215088014912 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1215088014913 TAP-like protein; Region: Abhydrolase_4; pfam08386 1215088014914 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1215088014915 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1215088014916 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088014917 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088014918 Bacterial transcriptional repressor; Region: TetR; pfam13972 1215088014919 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1215088014920 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1215088014921 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 1215088014922 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1215088014923 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 1215088014924 S-adenosylmethionine binding site [chemical binding]; other site 1215088014925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1215088014926 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1215088014927 ABC1 family; Region: ABC1; cl17513 1215088014928 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1215088014929 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1215088014930 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 1215088014931 metal binding site [ion binding]; metal-binding site 1215088014932 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 1215088014933 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1215088014934 sec-independent translocase; Provisional; Region: tatB; PRK00404 1215088014935 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1215088014936 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1215088014937 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1215088014938 RNA methyltransferase, RsmE family; Region: TIGR00046 1215088014939 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 1215088014940 dimerization interface [polypeptide binding]; other site 1215088014941 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088014942 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088014943 dimer interface [polypeptide binding]; other site 1215088014944 putative CheW interface [polypeptide binding]; other site 1215088014945 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 1215088014946 dimerization interface [polypeptide binding]; other site 1215088014947 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1215088014948 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1215088014949 dimer interface [polypeptide binding]; other site 1215088014950 putative CheW interface [polypeptide binding]; other site 1215088014951 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1215088014952 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1215088014953 Walker A/P-loop; other site 1215088014954 ATP binding site [chemical binding]; other site 1215088014955 Q-loop/lid; other site 1215088014956 ABC transporter signature motif; other site 1215088014957 Walker B; other site 1215088014958 D-loop; other site 1215088014959 H-loop/switch region; other site 1215088014960 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1215088014961 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 1215088014962 dimer interface [polypeptide binding]; other site 1215088014963 conserved gate region; other site 1215088014964 putative PBP binding loops; other site 1215088014965 ABC-ATPase subunit interface; other site 1215088014966 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1215088014967 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 1215088014968 substrate binding pocket [chemical binding]; other site 1215088014969 membrane-bound complex binding site; other site 1215088014970 hinge residues; other site 1215088014971 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1215088014972 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1215088014973 Ligand binding site; other site 1215088014974 DXD motif; other site 1215088014975 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1215088014976 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 1215088014977 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 1215088014978 putative active site [active] 1215088014979 dimerization interface [polypeptide binding]; other site 1215088014980 putative tRNAtyr binding site [nucleotide binding]; other site 1215088014981 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1215088014982 TAP-like protein; Region: Abhydrolase_4; pfam08386 1215088014983 Leucine rich repeat; Region: LRR_8; pfam13855 1215088014984 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 1215088014985 imidazolonepropionase; Validated; Region: PRK09356 1215088014986 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 1215088014987 active site 1215088014988 putative proline-specific permease; Provisional; Region: proY; PRK10580 1215088014989 Spore germination protein; Region: Spore_permease; cl17796 1215088014990 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1215088014991 active sites [active] 1215088014992 tetramer interface [polypeptide binding]; other site 1215088014993 urocanate hydratase; Provisional; Region: PRK05414 1215088014994 HutD; Region: HutD; pfam05962 1215088014995 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1215088014996 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088014997 DNA-binding site [nucleotide binding]; DNA binding site 1215088014998 UTRA domain; Region: UTRA; pfam07702 1215088014999 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1215088015000 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 1215088015001 active site 1215088015002 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1215088015003 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1215088015004 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1215088015005 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1215088015006 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 1215088015007 AMP binding site [chemical binding]; other site 1215088015008 metal binding site [ion binding]; metal-binding site 1215088015009 active site 1215088015010 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 1215088015011 homodimer interface [polypeptide binding]; other site 1215088015012 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1215088015013 active site pocket [active] 1215088015014 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1215088015015 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; pfam10142 1215088015016 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1215088015017 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1215088015018 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1215088015019 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1215088015020 G1 box; other site 1215088015021 putative GEF interaction site [polypeptide binding]; other site 1215088015022 GTP/Mg2+ binding site [chemical binding]; other site 1215088015023 Switch I region; other site 1215088015024 G2 box; other site 1215088015025 G3 box; other site 1215088015026 Switch II region; other site 1215088015027 G4 box; other site 1215088015028 G5 box; other site 1215088015029 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 1215088015030 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 1215088015031 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1215088015032 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1215088015033 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 1215088015034 Ligand Binding Site [chemical binding]; other site 1215088015035 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 1215088015036 glutamine synthetase; Provisional; Region: glnA; PRK09469 1215088015037 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1215088015038 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1215088015039 Cupin domain; Region: Cupin_2; cl17218 1215088015040 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1215088015041 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 1215088015042 dimer interface [polypeptide binding]; other site 1215088015043 phosphorylation site [posttranslational modification] 1215088015044 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 1215088015045 ATP binding site [chemical binding]; other site 1215088015046 Mg2+ binding site [ion binding]; other site 1215088015047 G-X-G motif; other site 1215088015048 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1215088015049 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088015050 active site 1215088015051 phosphorylation site [posttranslational modification] 1215088015052 intermolecular recognition site; other site 1215088015053 dimerization interface [polypeptide binding]; other site 1215088015054 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 1215088015055 Walker A motif; other site 1215088015056 ATP binding site [chemical binding]; other site 1215088015057 Walker B motif; other site 1215088015058 arginine finger; other site 1215088015059 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1215088015060 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1215088015061 preprotein translocase subunit SecB; Validated; Region: PRK05751 1215088015062 SecA binding site; other site 1215088015063 Preprotein binding site; other site 1215088015064 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 1215088015065 GSH binding site [chemical binding]; other site 1215088015066 catalytic residues [active] 1215088015067 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 1215088015068 active site residue [active] 1215088015069 phosphoglyceromutase; Provisional; Region: PRK05434 1215088015070 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1215088015071 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1215088015072 Peptidase family M23; Region: Peptidase_M23; pfam01551 1215088015073 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1215088015074 C-terminal peptidase (prc); Region: prc; TIGR00225 1215088015075 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 1215088015076 protein binding site [polypeptide binding]; other site 1215088015077 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1215088015078 Catalytic dyad [active] 1215088015079 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1215088015080 NodB motif; other site 1215088015081 putative active site [active] 1215088015082 putative catalytic site [active] 1215088015083 Zn binding site [ion binding]; other site 1215088015084 BCCT family transporter; Region: BCCT; cl00569 1215088015085 transcriptional regulator BetI; Validated; Region: PRK00767 1215088015086 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088015087 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1215088015088 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1215088015089 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1215088015090 NAD(P) binding site [chemical binding]; other site 1215088015091 catalytic residues [active] 1215088015092 choline dehydrogenase; Validated; Region: PRK02106 1215088015093 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1215088015094 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1215088015095 potassium/proton antiporter; Reviewed; Region: PRK05326 1215088015096 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1215088015097 TrkA-C domain; Region: TrkA_C; pfam02080 1215088015098 Transporter associated domain; Region: CorC_HlyC; smart01091 1215088015099 hypothetical protein; Provisional; Region: PRK11281 1215088015100 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1215088015101 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1215088015102 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1215088015103 hypothetical protein; Validated; Region: PRK00029 1215088015104 thioredoxin 2; Provisional; Region: PRK10996 1215088015105 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 1215088015106 catalytic residues [active] 1215088015107 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1215088015108 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 1215088015109 P-loop; other site 1215088015110 Magnesium ion binding site [ion binding]; other site 1215088015111 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 1215088015112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088015113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088015114 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 1215088015115 dimerization interface [polypeptide binding]; other site 1215088015116 substrate binding pocket [chemical binding]; other site 1215088015117 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088015118 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088015119 putative substrate translocation pore; other site 1215088015120 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1215088015121 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 1215088015122 substrate binding site [chemical binding]; other site 1215088015123 active site 1215088015124 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1215088015125 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 1215088015126 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1215088015127 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1215088015128 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 1215088015129 active site 1215088015130 dimer interface [polypeptide binding]; other site 1215088015131 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1215088015132 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 1215088015133 active site 1215088015134 FMN binding site [chemical binding]; other site 1215088015135 substrate binding site [chemical binding]; other site 1215088015136 3Fe-4S cluster binding site [ion binding]; other site 1215088015137 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 1215088015138 domain interface; other site 1215088015139 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1215088015140 Part of AAA domain; Region: AAA_19; pfam13245 1215088015141 Sporulation related domain; Region: SPOR; pfam05036 1215088015142 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1215088015143 active site 1215088015144 dimer interface [polypeptide binding]; other site 1215088015145 metal binding site [ion binding]; metal-binding site 1215088015146 shikimate kinase; Reviewed; Region: aroK; PRK00131 1215088015147 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 1215088015148 ADP binding site [chemical binding]; other site 1215088015149 magnesium binding site [ion binding]; other site 1215088015150 putative shikimate binding site; other site 1215088015151 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1215088015152 Secretin and TonB N terminus short domain; Region: STN; smart00965 1215088015153 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1215088015154 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1215088015155 Pilus assembly protein, PilO; Region: PilO; cl01234 1215088015156 Pilus assembly protein, PilP; Region: PilP; pfam04351 1215088015157 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1215088015158 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1215088015159 Competence protein A; Region: Competence_A; pfam11104 1215088015160 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1215088015161 Transglycosylase; Region: Transgly; pfam00912 1215088015162 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1215088015163 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1215088015164 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1215088015165 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1215088015166 putative NAD(P) binding site [chemical binding]; other site 1215088015167 Staphylococcal nuclease homologues; Region: SNc; smart00318 1215088015168 Catalytic site; other site 1215088015169 Staphylococcal nuclease homologue; Region: SNase; pfam00565 1215088015170 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1215088015171 primosome assembly protein PriA; Validated; Region: PRK05580 1215088015172 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 1215088015173 ATP binding site [chemical binding]; other site 1215088015174 putative Mg++ binding site [ion binding]; other site 1215088015175 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1215088015176 ATP-binding site [chemical binding]; other site 1215088015177 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1215088015178 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1215088015179 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1215088015180 active site 1215088015181 HIGH motif; other site 1215088015182 KMSK motif region; other site 1215088015183 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1215088015184 tRNA binding surface [nucleotide binding]; other site 1215088015185 anticodon binding site; other site 1215088015186 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 1215088015187 Sporulation related domain; Region: SPOR; pfam05036 1215088015188 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 1215088015189 TM2 domain; Region: TM2; cl00984 1215088015190 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1215088015191 NlpC/P60 family; Region: NLPC_P60; pfam00877 1215088015192 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1215088015193 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 1215088015194 Walker A motif; other site 1215088015195 ATP binding site [chemical binding]; other site 1215088015196 Walker B motif; other site 1215088015197 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1215088015198 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1215088015199 catalytic residue [active] 1215088015200 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1215088015201 pyrroline-5-carboxylate reductase; Region: PLN02688 1215088015202 YGGT family; Region: YGGT; pfam02325 1215088015203 YGGT family; Region: YGGT; pfam02325 1215088015204 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1215088015205 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1215088015206 hypothetical protein; Provisional; Region: PRK08317 1215088015207 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 1215088015208 S-adenosylmethionine binding site [chemical binding]; other site 1215088015209 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1215088015210 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 1215088015211 active site 1215088015212 dimerization interface [polypeptide binding]; other site 1215088015213 HemN family oxidoreductase; Provisional; Region: PRK05660 1215088015214 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 1215088015215 FeS/SAM binding site; other site 1215088015216 HemN C-terminal domain; Region: HemN_C; pfam06969 1215088015217 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1215088015218 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1215088015219 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 1215088015220 S-adenosylmethionine binding site [chemical binding]; other site 1215088015221 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 1215088015222 ThiS interaction site; other site 1215088015223 putative active site [active] 1215088015224 tetramer interface [polypeptide binding]; other site 1215088015225 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1215088015226 thiS-thiF/thiG interaction site; other site 1215088015227 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1215088015228 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1215088015229 Transglycosylase; Region: Transgly; cl17702 1215088015230 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1215088015231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1215088015232 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 1215088015233 DNA binding residues [nucleotide binding] 1215088015234 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1215088015235 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1215088015236 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1215088015237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088015238 Walker A/P-loop; other site 1215088015239 ATP binding site [chemical binding]; other site 1215088015240 Q-loop/lid; other site 1215088015241 ABC transporter signature motif; other site 1215088015242 Walker B; other site 1215088015243 D-loop; other site 1215088015244 H-loop/switch region; other site 1215088015245 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1215088015246 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1215088015247 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 1215088015248 P loop; other site 1215088015249 GTP binding site [chemical binding]; other site 1215088015250 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1215088015251 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1215088015252 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1215088015253 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1215088015254 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1215088015255 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1215088015256 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 1215088015257 S-adenosylmethionine binding site [chemical binding]; other site 1215088015258 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1215088015259 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1215088015260 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1215088015261 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1215088015262 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1215088015263 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1215088015264 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1215088015265 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1215088015266 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 1215088015267 active site residue [active] 1215088015268 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 1215088015269 active site residue [active] 1215088015270 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1215088015271 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088015272 Bacterial transcriptional repressor; Region: TetR; pfam13972 1215088015273 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1215088015274 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 1215088015275 NAD(P) binding site [chemical binding]; other site 1215088015276 catalytic residues [active] 1215088015277 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1215088015278 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 1215088015279 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1215088015280 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1215088015281 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1215088015282 active site 1215088015283 (T/H)XGH motif; other site 1215088015284 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1215088015285 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1215088015286 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1215088015287 DNA binding site [nucleotide binding] 1215088015288 catalytic residue [active] 1215088015289 H2TH interface [polypeptide binding]; other site 1215088015290 putative catalytic residues [active] 1215088015291 turnover-facilitating residue; other site 1215088015292 intercalation triad [nucleotide binding]; other site 1215088015293 8OG recognition residue [nucleotide binding]; other site 1215088015294 putative reading head residues; other site 1215088015295 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1215088015296 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1215088015297 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1215088015298 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 1215088015299 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1215088015300 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1215088015301 proposed catalytic triad [active] 1215088015302 conserved cys residue [active] 1215088015303 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1215088015304 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1215088015305 putative RNA binding site [nucleotide binding]; other site 1215088015306 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 1215088015307 S-adenosylmethionine binding site [chemical binding]; other site 1215088015308 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1215088015309 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088015310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088015311 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 1215088015312 dimerization interface [polypeptide binding]; other site 1215088015313 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1215088015314 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1215088015315 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1215088015316 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1215088015317 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1215088015318 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 1215088015319 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1215088015320 folate binding site [chemical binding]; other site 1215088015321 NADP+ binding site [chemical binding]; other site 1215088015322 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1215088015323 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1215088015324 G1 box; other site 1215088015325 GTP/Mg2+ binding site [chemical binding]; other site 1215088015326 G2 box; other site 1215088015327 Switch I region; other site 1215088015328 G3 box; other site 1215088015329 Switch II region; other site 1215088015330 G4 box; other site 1215088015331 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1215088015332 G5 box; other site 1215088015333 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 1215088015334 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1215088015335 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1215088015336 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 1215088015337 dimer interface [polypeptide binding]; other site 1215088015338 conserved gate region; other site 1215088015339 putative PBP binding loops; other site 1215088015340 ABC-ATPase subunit interface; other site 1215088015341 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 1215088015342 dimer interface [polypeptide binding]; other site 1215088015343 conserved gate region; other site 1215088015344 putative PBP binding loops; other site 1215088015345 ABC-ATPase subunit interface; other site 1215088015346 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 1215088015347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088015348 Walker A/P-loop; other site 1215088015349 ATP binding site [chemical binding]; other site 1215088015350 Q-loop/lid; other site 1215088015351 ABC transporter signature motif; other site 1215088015352 Walker B; other site 1215088015353 D-loop; other site 1215088015354 H-loop/switch region; other site 1215088015355 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1215088015356 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088015357 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 1215088015358 dimerization interface [polypeptide binding]; other site 1215088015359 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1215088015360 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 1215088015361 metal-binding site [ion binding] 1215088015362 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1215088015363 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1215088015364 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1215088015365 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1215088015366 DNA binding residues [nucleotide binding] 1215088015367 dimer interface [polypeptide binding]; other site 1215088015368 putative metal binding site [ion binding]; other site 1215088015369 thymidylate synthase; Provisional; Region: thyA; PRK13821 1215088015370 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 1215088015371 dimerization interface [polypeptide binding]; other site 1215088015372 active site 1215088015373 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1215088015374 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1215088015375 NRDE protein; Region: NRDE; cl01315 1215088015376 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1215088015377 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1215088015378 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1215088015379 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1215088015380 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1215088015381 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 1215088015382 putative active site [active] 1215088015383 Ap4A binding site [chemical binding]; other site 1215088015384 nudix motif; other site 1215088015385 putative metal binding site [ion binding]; other site 1215088015386 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1215088015387 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 1215088015388 motif II; other site 1215088015389 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 1215088015390 threonine dehydratase; Reviewed; Region: PRK09224 1215088015391 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 1215088015392 tetramer interface [polypeptide binding]; other site 1215088015393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088015394 catalytic residue [active] 1215088015395 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1215088015396 putative Ile/Val binding site [chemical binding]; other site 1215088015397 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1215088015398 putative Ile/Val binding site [chemical binding]; other site 1215088015399 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 1215088015400 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1215088015401 active site 1215088015402 dimer interface [polypeptide binding]; other site 1215088015403 SdiA-regulated; Region: SdiA-regulated; pfam06977 1215088015404 SdiA-regulated; Region: SdiA-regulated; cd09971 1215088015405 putative active site [active] 1215088015406 SdiA-regulated; Region: SdiA-regulated; pfam06977 1215088015407 SdiA-regulated; Region: SdiA-regulated; cd09971 1215088015408 putative active site [active] 1215088015409 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1215088015410 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 1215088015411 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1215088015412 FAD binding domain; Region: FAD_binding_4; pfam01565 1215088015413 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1215088015414 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1215088015415 ligand binding site [chemical binding]; other site 1215088015416 NAD binding site [chemical binding]; other site 1215088015417 tetramer interface [polypeptide binding]; other site 1215088015418 catalytic site [active] 1215088015419 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1215088015420 L-serine binding site [chemical binding]; other site 1215088015421 ACT domain interface; other site 1215088015422 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 1215088015423 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 1215088015424 substrate binding pocket [chemical binding]; other site 1215088015425 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1215088015426 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 1215088015427 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1215088015428 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 1215088015429 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1215088015430 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1215088015431 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 1215088015432 active site 1215088015433 substrate binding site [chemical binding]; other site 1215088015434 trimer interface [polypeptide binding]; other site 1215088015435 CoA binding site [chemical binding]; other site 1215088015436 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1215088015437 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 1215088015438 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 1215088015439 active site 1215088015440 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1215088015441 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1215088015442 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 1215088015443 substrate binding pocket [chemical binding]; other site 1215088015444 membrane-bound complex binding site; other site 1215088015445 hinge residues; other site 1215088015446 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1215088015447 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1215088015448 Walker A/P-loop; other site 1215088015449 ATP binding site [chemical binding]; other site 1215088015450 Q-loop/lid; other site 1215088015451 ABC transporter signature motif; other site 1215088015452 Walker B; other site 1215088015453 D-loop; other site 1215088015454 H-loop/switch region; other site 1215088015455 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 1215088015456 dimer interface [polypeptide binding]; other site 1215088015457 conserved gate region; other site 1215088015458 putative PBP binding loops; other site 1215088015459 ABC-ATPase subunit interface; other site 1215088015460 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 1215088015461 dimer interface [polypeptide binding]; other site 1215088015462 conserved gate region; other site 1215088015463 putative PBP binding loops; other site 1215088015464 ABC-ATPase subunit interface; other site 1215088015465 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1215088015466 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1215088015467 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 1215088015468 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1215088015469 Walker A motif; other site 1215088015470 ATP binding site [chemical binding]; other site 1215088015471 Walker B motif; other site 1215088015472 arginine finger; other site 1215088015473 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1215088015474 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1215088015475 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1215088015476 TolR protein; Region: tolR; TIGR02801 1215088015477 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1215088015478 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1215088015479 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1215088015480 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1215088015481 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1215088015482 Walker A/P-loop; other site 1215088015483 ATP binding site [chemical binding]; other site 1215088015484 Q-loop/lid; other site 1215088015485 ABC transporter signature motif; other site 1215088015486 Walker B; other site 1215088015487 D-loop; other site 1215088015488 H-loop/switch region; other site 1215088015489 TOBE-like domain; Region: TOBE_3; pfam12857 1215088015490 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1215088015491 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 1215088015492 dimer interface [polypeptide binding]; other site 1215088015493 conserved gate region; other site 1215088015494 putative PBP binding loops; other site 1215088015495 ABC-ATPase subunit interface; other site 1215088015496 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1215088015497 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 1215088015498 dimer interface [polypeptide binding]; other site 1215088015499 conserved gate region; other site 1215088015500 putative PBP binding loops; other site 1215088015501 ABC-ATPase subunit interface; other site 1215088015502 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1215088015503 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1215088015504 Uncharacterized small protein [Function unknown]; Region: COG5583 1215088015505 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1215088015506 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1215088015507 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088015508 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088015509 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1215088015510 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088015511 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088015512 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088015513 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1215088015514 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1215088015515 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 1215088015516 dimer interface [polypeptide binding]; other site 1215088015517 conserved gate region; other site 1215088015518 putative PBP binding loops; other site 1215088015519 ABC-ATPase subunit interface; other site 1215088015520 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1215088015521 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 1215088015522 dimer interface [polypeptide binding]; other site 1215088015523 conserved gate region; other site 1215088015524 putative PBP binding loops; other site 1215088015525 ABC-ATPase subunit interface; other site 1215088015526 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1215088015527 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088015528 Walker A/P-loop; other site 1215088015529 ATP binding site [chemical binding]; other site 1215088015530 Q-loop/lid; other site 1215088015531 ABC transporter signature motif; other site 1215088015532 Walker B; other site 1215088015533 D-loop; other site 1215088015534 H-loop/switch region; other site 1215088015535 TOBE domain; Region: TOBE_2; pfam08402 1215088015536 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1215088015537 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1215088015538 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1215088015539 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1215088015540 putative aminotransferase; Validated; Region: PRK07480 1215088015541 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 1215088015542 inhibitor-cofactor binding pocket; inhibition site 1215088015543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088015544 catalytic residue [active] 1215088015545 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1215088015546 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1215088015547 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1215088015548 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1215088015549 N-acetylglutamate synthase; Validated; Region: PRK05279 1215088015550 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 1215088015551 putative feedback inhibition sensing region; other site 1215088015552 putative nucleotide binding site [chemical binding]; other site 1215088015553 putative substrate binding site [chemical binding]; other site 1215088015554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088015555 Coenzyme A binding pocket [chemical binding]; other site 1215088015556 acetylornithine deacetylase; Provisional; Region: PRK05111 1215088015557 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1215088015558 metal binding site [ion binding]; metal-binding site 1215088015559 putative dimer interface [polypeptide binding]; other site 1215088015560 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1215088015561 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 1215088015562 putative active site; other site 1215088015563 putative metal binding residues [ion binding]; other site 1215088015564 signature motif; other site 1215088015565 putative triphosphate binding site [ion binding]; other site 1215088015566 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1215088015567 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 1215088015568 putative DNA binding site [nucleotide binding]; other site 1215088015569 putative Zn2+ binding site [ion binding]; other site 1215088015570 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088015571 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1215088015572 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1215088015573 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 1215088015574 Walker A motif; other site 1215088015575 ATP binding site [chemical binding]; other site 1215088015576 Walker B motif; other site 1215088015577 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1215088015578 glycine dehydrogenase; Provisional; Region: PRK12566 1215088015579 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 1215088015580 tetramer interface [polypeptide binding]; other site 1215088015581 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088015582 catalytic residue [active] 1215088015583 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 1215088015584 tetramer interface [polypeptide binding]; other site 1215088015585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088015586 catalytic residue [active] 1215088015587 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 1215088015588 lipoyl attachment site [posttranslational modification]; other site 1215088015589 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1215088015590 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1215088015591 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1215088015592 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 1215088015593 dimer interface [polypeptide binding]; other site 1215088015594 conserved gate region; other site 1215088015595 putative PBP binding loops; other site 1215088015596 ABC-ATPase subunit interface; other site 1215088015597 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 1215088015598 dimer interface [polypeptide binding]; other site 1215088015599 conserved gate region; other site 1215088015600 putative PBP binding loops; other site 1215088015601 ABC-ATPase subunit interface; other site 1215088015602 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1215088015603 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1215088015604 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1215088015605 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 1215088015606 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 1215088015607 active site 2 [active] 1215088015608 active site 1 [active] 1215088015609 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1215088015610 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1215088015611 proline aminopeptidase P II; Provisional; Region: PRK10879 1215088015612 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1215088015613 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 1215088015614 active site 1215088015615 hypothetical protein; Reviewed; Region: PRK02166 1215088015616 TIGR02449 family protein; Region: TIGR02449 1215088015617 Cell division protein ZapA; Region: ZapA; pfam05164 1215088015618 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1215088015619 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1215088015620 EVE domain; Region: EVE; cl00728 1215088015621 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 1215088015622 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1215088015623 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088015624 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1215088015625 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1215088015626 Walker A/P-loop; other site 1215088015627 ATP binding site [chemical binding]; other site 1215088015628 Q-loop/lid; other site 1215088015629 ABC transporter signature motif; other site 1215088015630 Walker B; other site 1215088015631 D-loop; other site 1215088015632 H-loop/switch region; other site 1215088015633 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088015634 Walker A/P-loop; other site 1215088015635 ATP binding site [chemical binding]; other site 1215088015636 Q-loop/lid; other site 1215088015637 ABC transporter signature motif; other site 1215088015638 Walker B; other site 1215088015639 D-loop; other site 1215088015640 H-loop/switch region; other site 1215088015641 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1215088015642 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1215088015643 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1215088015644 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1215088015645 PemK-like protein; Region: PemK; cl00995 1215088015646 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 1215088015647 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1215088015648 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1215088015649 NAD(P) binding site [chemical binding]; other site 1215088015650 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 1215088015651 putative active site pocket [active] 1215088015652 dimerization interface [polypeptide binding]; other site 1215088015653 putative catalytic residue [active] 1215088015654 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1215088015655 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 1215088015656 catalytic loop [active] 1215088015657 iron binding site [ion binding]; other site 1215088015658 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 1215088015659 FAD binding pocket [chemical binding]; other site 1215088015660 FAD binding motif [chemical binding]; other site 1215088015661 phosphate binding motif [ion binding]; other site 1215088015662 beta-alpha-beta structure motif; other site 1215088015663 NAD binding pocket [chemical binding]; other site 1215088015664 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1215088015665 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1215088015666 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1215088015667 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 1215088015668 RNA binding site [nucleotide binding]; other site 1215088015669 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 1215088015670 multimer interface [polypeptide binding]; other site 1215088015671 Walker A motif; other site 1215088015672 ATP binding site [chemical binding]; other site 1215088015673 Walker B motif; other site 1215088015674 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 1215088015675 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1215088015676 catalytic residues [active] 1215088015677 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1215088015678 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1215088015679 polyphosphate kinase; Provisional; Region: PRK05443 1215088015680 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1215088015681 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1215088015682 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1215088015683 putative active site [active] 1215088015684 catalytic site [active] 1215088015685 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1215088015686 putative domain interface [polypeptide binding]; other site 1215088015687 putative active site [active] 1215088015688 catalytic site [active] 1215088015689 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1215088015690 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1215088015691 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1215088015692 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1215088015693 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1215088015694 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1215088015695 conserved cys residue [active] 1215088015696 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 1215088015697 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1215088015698 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1215088015699 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1215088015700 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1215088015701 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1215088015702 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1215088015703 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 1215088015704 putative iron binding site [ion binding]; other site 1215088015705 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1215088015706 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1215088015707 active site 1215088015708 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1215088015709 substrate binding site [chemical binding]; other site 1215088015710 catalytic residues [active] 1215088015711 dimer interface [polypeptide binding]; other site 1215088015712 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1215088015713 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1215088015714 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1215088015715 Protein of unknown function, DUF484; Region: DUF484; cl17449 1215088015716 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1215088015717 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 1215088015718 active site 1215088015719 DNA binding site [nucleotide binding] 1215088015720 Int/Topo IB signature motif; other site 1215088015721 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1215088015722 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 1215088015723 motif II; other site 1215088015724 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1215088015725 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1215088015726 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1215088015727 Membrane fusogenic activity; Region: BMFP; pfam04380 1215088015728 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 1215088015729 putative active site pocket [active] 1215088015730 dimerization interface [polypeptide binding]; other site 1215088015731 putative catalytic residue [active] 1215088015732 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1215088015733 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1215088015734 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1215088015735 Nuclear pore protein [Nuclear structure]; Region: NPL4; COG5100 1215088015736 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cd00719 1215088015737 GIY-YIG motif/motif A; other site 1215088015738 active site 1215088015739 catalytic site [active] 1215088015740 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1215088015741 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 1215088015742 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 1215088015743 putative metal binding site [ion binding]; other site 1215088015744 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1215088015745 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 1215088015746 putative uracil binding site [chemical binding]; other site 1215088015747 putative active site [active] 1215088015748 thymidylate synthase; Provisional; Region: thyA; PRK00956 1215088015749 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 1215088015750 active site 1215088015751 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1215088015752 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 1215088015753 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 1215088015754 non-specific DNA binding site [nucleotide binding]; other site 1215088015755 salt bridge; other site 1215088015756 sequence-specific DNA binding site [nucleotide binding]; other site 1215088015757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088015758 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1215088015759 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1215088015760 Protein export membrane protein; Region: SecD_SecF; cl14618 1215088015761 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1215088015762 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1215088015763 HlyD family secretion protein; Region: HlyD_3; pfam13437 1215088015764 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1215088015765 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1215088015766 Bacterial transcriptional regulator; Region: IclR; pfam01614 1215088015767 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088015768 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1215088015769 acetolactate synthase; Reviewed; Region: PRK08322 1215088015770 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1215088015771 PYR/PP interface [polypeptide binding]; other site 1215088015772 dimer interface [polypeptide binding]; other site 1215088015773 TPP binding site [chemical binding]; other site 1215088015774 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1215088015775 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1215088015776 TPP-binding site [chemical binding]; other site 1215088015777 dimer interface [polypeptide binding]; other site 1215088015778 FAD binding domain; Region: FAD_binding_3; pfam01494 1215088015779 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088015780 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 1215088015781 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088015782 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1215088015783 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1215088015784 active site 1215088015785 catalytic residues [active] 1215088015786 metal binding site [ion binding]; metal-binding site 1215088015787 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1215088015788 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1215088015789 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1215088015790 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1215088015791 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 1215088015792 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 1215088015793 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 1215088015794 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1215088015795 putative active site [active] 1215088015796 Fe(II) binding site [ion binding]; other site 1215088015797 putative dimer interface [polypeptide binding]; other site 1215088015798 putative tetramer interface [polypeptide binding]; other site 1215088015799 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1215088015800 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1215088015801 DNA-binding site [nucleotide binding]; DNA binding site 1215088015802 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1215088015803 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1215088015804 Cupin domain; Region: Cupin_2; pfam07883 1215088015805 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1215088015806 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1215088015807 NAD(P) binding site [chemical binding]; other site 1215088015808 TniQ; Region: TniQ; pfam06527 1215088015809 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 1215088015810 AAA domain; Region: AAA_22; pfam13401 1215088015811 Walker A motif; other site 1215088015812 ATP binding site [chemical binding]; other site 1215088015813 Walker B motif; other site 1215088015814 arginine finger; other site 1215088015815 Helix-turn-helix domain; Region: HTH_28; pfam13518 1215088015816 Winged helix-turn helix; Region: HTH_29; pfam13551 1215088015817 Integrase core domain; Region: rve; pfam00665 1215088015818 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1215088015819 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1215088015820 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1215088015821 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1215088015822 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1215088015823 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1215088015824 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088015825 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088015826 active site 1215088015827 phosphorylation site [posttranslational modification] 1215088015828 intermolecular recognition site; other site 1215088015829 dimerization interface [polypeptide binding]; other site 1215088015830 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1215088015831 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 1215088015832 DNA binding site [nucleotide binding] 1215088015833 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088015834 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088015835 active site 1215088015836 phosphorylation site [posttranslational modification] 1215088015837 intermolecular recognition site; other site 1215088015838 dimerization interface [polypeptide binding]; other site 1215088015839 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 1215088015840 DNA binding residues [nucleotide binding] 1215088015841 dimerization interface [polypeptide binding]; other site 1215088015842 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1215088015843 active site 1215088015844 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1215088015845 substrate binding site [chemical binding]; other site 1215088015846 activation loop (A-loop); other site 1215088015847 AAA ATPase domain; Region: AAA_16; pfam13191 1215088015848 Predicted ATPase [General function prediction only]; Region: COG3899 1215088015849 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1215088015850 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1215088015851 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 1215088015852 dimer interface [polypeptide binding]; other site 1215088015853 phosphorylation site [posttranslational modification] 1215088015854 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 1215088015855 ATP binding site [chemical binding]; other site 1215088015856 Mg2+ binding site [ion binding]; other site 1215088015857 G-X-G motif; other site 1215088015858 Isochorismatase family; Region: Isochorismatase; pfam00857 1215088015859 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 1215088015860 catalytic triad [active] 1215088015861 dimer interface [polypeptide binding]; other site 1215088015862 conserved cis-peptide bond; other site 1215088015863 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1215088015864 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088015865 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088015866 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1215088015867 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1215088015868 conserved cys residue [active] 1215088015869 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088015870 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1215088015871 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1215088015872 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1215088015873 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1215088015874 TrkA-N domain; Region: TrkA_N; pfam02254 1215088015875 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1215088015876 Isochorismatase family; Region: Isochorismatase; pfam00857 1215088015877 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 1215088015878 catalytic triad [active] 1215088015879 dimer interface [polypeptide binding]; other site 1215088015880 conserved cis-peptide bond; other site 1215088015881 LysR family transcriptional regulator; Provisional; Region: PRK14997 1215088015882 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088015883 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 1215088015884 putative effector binding pocket; other site 1215088015885 putative dimerization interface [polypeptide binding]; other site 1215088015886 outer membrane porin, OprD family; Region: OprD; pfam03573 1215088015887 Transmembrane secretion effector; Region: MFS_3; pfam05977 1215088015888 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088015889 putative substrate translocation pore; other site 1215088015890 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1215088015891 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1215088015892 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 1215088015893 active site 1215088015894 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1215088015895 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1215088015896 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1215088015897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1215088015898 Isochorismatase family; Region: Isochorismatase; pfam00857 1215088015899 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 1215088015900 catalytic triad [active] 1215088015901 dimer interface [polypeptide binding]; other site 1215088015902 conserved cis-peptide bond; other site 1215088015903 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1215088015904 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1215088015905 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1215088015906 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 1215088015907 ligand binding site [chemical binding]; other site 1215088015908 flexible hinge region; other site 1215088015909 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088015910 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088015911 aldehyde dehydrogenase family 7 member; Region: PLN02315 1215088015912 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1215088015913 tetrameric interface [polypeptide binding]; other site 1215088015914 NAD binding site [chemical binding]; other site 1215088015915 catalytic residues [active] 1215088015916 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1215088015917 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088015918 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 1215088015919 dimerization interface [polypeptide binding]; other site 1215088015920 substrate binding pocket [chemical binding]; other site 1215088015921 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1215088015922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1215088015923 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1215088015924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088015925 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 1215088015926 dimerization interface [polypeptide binding]; other site 1215088015927 multidrug efflux protein NorA; Provisional; Region: PRK00187 1215088015928 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1215088015929 cation binding site [ion binding]; other site 1215088015930 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1215088015931 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1215088015932 metal binding site [ion binding]; metal-binding site 1215088015933 active site 1215088015934 I-site; other site 1215088015935 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 1215088015936 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1215088015937 Part of AAA domain; Region: AAA_19; pfam13245 1215088015938 Family description; Region: UvrD_C_2; pfam13538 1215088015939 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1215088015940 active site 1215088015941 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1215088015942 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1215088015943 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1215088015944 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1215088015945 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 1215088015946 non-specific DNA binding site [nucleotide binding]; other site 1215088015947 salt bridge; other site 1215088015948 sequence-specific DNA binding site [nucleotide binding]; other site 1215088015949 Cupin domain; Region: Cupin_2; pfam07883 1215088015950 alanine racemase; Reviewed; Region: dadX; PRK03646 1215088015951 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1215088015952 active site 1215088015953 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1215088015954 substrate binding site [chemical binding]; other site 1215088015955 catalytic residues [active] 1215088015956 dimer interface [polypeptide binding]; other site 1215088015957 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1215088015958 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1215088015959 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1215088015960 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1215088015961 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 1215088015962 putative DNA binding site [nucleotide binding]; other site 1215088015963 putative Zn2+ binding site [ion binding]; other site 1215088015964 AsnC family; Region: AsnC_trans_reg; pfam01037 1215088015965 Flagellin N-methylase; Region: FliB; pfam03692 1215088015966 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1215088015967 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1215088015968 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1215088015969 potential frameshift: common BLAST hit: gi|167036313|ref|YP_001671544.1| transcriptional regulator 1215088015970 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1215088015971 PLD-like domain; Region: PLDc_2; pfam13091 1215088015972 putative active site [active] 1215088015973 catalytic site [active] 1215088015974 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1215088015975 PLD-like domain; Region: PLDc_2; pfam13091 1215088015976 putative active site [active] 1215088015977 catalytic site [active] 1215088015978 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088015979 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1215088015980 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1215088015981 NAD(P) binding site [chemical binding]; other site 1215088015982 catalytic residues [active] 1215088015983 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1215088015984 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1215088015985 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1215088015986 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1215088015987 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1215088015988 peptide binding site [polypeptide binding]; other site 1215088015989 hypothetical protein; Reviewed; Region: PRK00024 1215088015990 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1215088015991 MPN+ (JAMM) motif; other site 1215088015992 Zinc-binding site [ion binding]; other site 1215088015993 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1215088015994 Flavoprotein; Region: Flavoprotein; pfam02441 1215088015995 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1215088015996 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1215088015997 trimer interface [polypeptide binding]; other site 1215088015998 active site 1215088015999 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 1215088016000 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1215088016001 active site 1215088016002 substrate binding site [chemical binding]; other site 1215088016003 metal binding site [ion binding]; metal-binding site 1215088016004 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 1215088016005 feedback inhibition sensing region; other site 1215088016006 homohexameric interface [polypeptide binding]; other site 1215088016007 nucleotide binding site [chemical binding]; other site 1215088016008 N-acetyl-L-glutamate binding site [chemical binding]; other site 1215088016009 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1215088016010 active site 1215088016011 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1215088016012 putative active site [active] 1215088016013 putative catalytic site [active] 1215088016014 putative DNA binding site [nucleotide binding]; other site 1215088016015 putative phosphate binding site [ion binding]; other site 1215088016016 metal binding site A [ion binding]; metal-binding site 1215088016017 putative AP binding site [nucleotide binding]; other site 1215088016018 putative metal binding site B [ion binding]; other site 1215088016019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 1215088016020 ribonuclease PH; Reviewed; Region: rph; PRK00173 1215088016021 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1215088016022 hexamer interface [polypeptide binding]; other site 1215088016023 active site 1215088016024 hypothetical protein; Provisional; Region: PRK11820 1215088016025 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1215088016026 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1215088016027 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1215088016028 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 1215088016029 catalytic site [active] 1215088016030 G-X2-G-X-G-K; other site 1215088016031 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1215088016032 Peptidase C26; Region: Peptidase_C26; pfam07722 1215088016033 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1215088016034 catalytic triad [active] 1215088016035 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1215088016036 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1215088016037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088016038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088016039 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 1215088016040 dimerization interface [polypeptide binding]; other site 1215088016041 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1215088016042 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1215088016043 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1215088016044 Zn2+ binding site [ion binding]; other site 1215088016045 Mg2+ binding site [ion binding]; other site 1215088016046 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1215088016047 synthetase active site [active] 1215088016048 NTP binding site [chemical binding]; other site 1215088016049 metal binding site [ion binding]; metal-binding site 1215088016050 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 1215088016051 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1215088016052 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 1215088016053 homotrimer interaction site [polypeptide binding]; other site 1215088016054 putative active site [active] 1215088016055 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1215088016056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1215088016057 NAD(P) binding site [chemical binding]; other site 1215088016058 active site 1215088016059 tonB-system energizer ExbB; Region: exbB; TIGR02797 1215088016060 biopolymer transport protein ExbD; Provisional; Region: PRK11267 1215088016061 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1215088016062 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1215088016063 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1215088016064 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1215088016065 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088016066 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 1215088016067 dimerization interface [polypeptide binding]; other site 1215088016068 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1215088016069 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 1215088016070 generic binding surface II; other site 1215088016071 ssDNA binding site; other site 1215088016072 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 1215088016073 ATP binding site [chemical binding]; other site 1215088016074 putative Mg++ binding site [ion binding]; other site 1215088016075 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 1215088016076 nucleotide binding region [chemical binding]; other site 1215088016077 ATP-binding site [chemical binding]; other site 1215088016078 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 1215088016079 putative deacylase active site [active] 1215088016080 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1215088016081 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1215088016082 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 1215088016083 IHF dimer interface [polypeptide binding]; other site 1215088016084 IHF - DNA interface [nucleotide binding]; other site 1215088016085 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1215088016086 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088016087 hypothetical protein; Provisional; Region: PRK07236 1215088016088 Rubredoxin [Energy production and conversion]; Region: COG1773 1215088016089 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 1215088016090 iron binding site [ion binding]; other site 1215088016091 Chorismate lyase; Region: Chor_lyase; cl01230 1215088016092 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1215088016093 UbiA prenyltransferase family; Region: UbiA; pfam01040 1215088016094 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1215088016095 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1215088016096 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1215088016097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088016098 active site 1215088016099 phosphorylation site [posttranslational modification] 1215088016100 intermolecular recognition site; other site 1215088016101 dimerization interface [polypeptide binding]; other site 1215088016102 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 1215088016103 DNA binding site [nucleotide binding] 1215088016104 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1215088016105 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1215088016106 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 1215088016107 putative active site [active] 1215088016108 heme pocket [chemical binding]; other site 1215088016109 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 1215088016110 dimer interface [polypeptide binding]; other site 1215088016111 phosphorylation site [posttranslational modification] 1215088016112 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 1215088016113 ATP binding site [chemical binding]; other site 1215088016114 Mg2+ binding site [ion binding]; other site 1215088016115 G-X-G motif; other site 1215088016116 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1215088016117 Domain of unknown function DUF21; Region: DUF21; pfam01595 1215088016118 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 1215088016119 Transporter associated domain; Region: CorC_HlyC; smart01091 1215088016120 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1215088016121 Peptidase family M23; Region: Peptidase_M23; pfam01551 1215088016122 Response regulator receiver domain; Region: Response_reg; pfam00072 1215088016123 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1215088016124 active site 1215088016125 phosphorylation site [posttranslational modification] 1215088016126 intermolecular recognition site; other site 1215088016127 dimerization interface [polypeptide binding]; other site 1215088016128 transcriptional regulator PhoU; Provisional; Region: PRK11115 1215088016129 PhoU domain; Region: PhoU; pfam01895 1215088016130 PhoU domain; Region: PhoU; pfam01895 1215088016131 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1215088016132 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1215088016133 Walker A/P-loop; other site 1215088016134 ATP binding site [chemical binding]; other site 1215088016135 Q-loop/lid; other site 1215088016136 ABC transporter signature motif; other site 1215088016137 Walker B; other site 1215088016138 D-loop; other site 1215088016139 H-loop/switch region; other site 1215088016140 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 1215088016141 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1215088016142 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 1215088016143 dimer interface [polypeptide binding]; other site 1215088016144 conserved gate region; other site 1215088016145 putative PBP binding loops; other site 1215088016146 ABC-ATPase subunit interface; other site 1215088016147 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 1215088016148 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 1215088016149 dimer interface [polypeptide binding]; other site 1215088016150 conserved gate region; other site 1215088016151 putative PBP binding loops; other site 1215088016152 ABC-ATPase subunit interface; other site 1215088016153 phosphate binding protein; Region: ptsS_2; TIGR02136 1215088016154 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1215088016155 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088016156 metabolite-proton symporter; Region: 2A0106; TIGR00883 1215088016157 putative substrate translocation pore; other site 1215088016158 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 1215088016159 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1215088016160 active site 1215088016161 phosphate binding residues; other site 1215088016162 catalytic residues [active] 1215088016163 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1215088016164 Predicted membrane protein [Function unknown]; Region: COG2261 1215088016165 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1215088016166 ATP-grasp domain; Region: ATP-grasp; pfam02222 1215088016167 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1215088016168 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 1215088016169 active site 1215088016170 cell density-dependent motility repressor; Provisional; Region: PRK10082 1215088016171 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088016172 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 1215088016173 dimerization interface [polypeptide binding]; other site 1215088016174 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1215088016175 Aspartase; Region: Aspartase; cd01357 1215088016176 active sites [active] 1215088016177 tetramer interface [polypeptide binding]; other site 1215088016178 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1215088016179 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1215088016180 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1215088016181 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1215088016182 active site 1215088016183 Zn binding site [ion binding]; other site 1215088016184 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1215088016185 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1215088016186 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 1215088016187 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1215088016188 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1215088016189 homodimer interface [polypeptide binding]; other site 1215088016190 catalytic residue [active] 1215088016191 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1215088016192 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1215088016193 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088016194 Coenzyme A binding pocket [chemical binding]; other site 1215088016195 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1215088016196 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1215088016197 pyruvate carboxylase subunit B; Validated; Region: PRK09282 1215088016198 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1215088016199 active site 1215088016200 catalytic residues [active] 1215088016201 metal binding site [ion binding]; metal-binding site 1215088016202 homodimer binding site [polypeptide binding]; other site 1215088016203 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 1215088016204 carboxyltransferase (CT) interaction site; other site 1215088016205 biotinylation site [posttranslational modification]; other site 1215088016206 pyruvate carboxylase subunit A; Validated; Region: PRK07178 1215088016207 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1215088016208 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1215088016209 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1215088016210 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1215088016211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1215088016212 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 1215088016213 dimerization interface [polypeptide binding]; other site 1215088016214 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1215088016215 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1215088016216 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 1215088016217 putative active site [active] 1215088016218 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1215088016219 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1215088016220 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1215088016221 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1215088016222 Part of AAA domain; Region: AAA_19; pfam13245 1215088016223 Family description; Region: UvrD_C_2; pfam13538 1215088016224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1215088016225 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1215088016226 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1215088016227 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 1215088016228 pyridoxamine kinase; Validated; Region: PRK05756 1215088016229 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 1215088016230 pyridoxal binding site [chemical binding]; other site 1215088016231 dimer interface [polypeptide binding]; other site 1215088016232 ATP binding site [chemical binding]; other site 1215088016233 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1215088016234 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1215088016235 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1215088016236 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1215088016237 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 1215088016238 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1215088016239 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1215088016240 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1215088016241 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1215088016242 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 1215088016243 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1215088016244 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1215088016245 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 1215088016246 putative active site [active] 1215088016247 catalytic site [active] 1215088016248 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1215088016249 putative active site [active] 1215088016250 catalytic site [active] 1215088016251 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1215088016252 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 1215088016253 S-adenosylmethionine binding site [chemical binding]; other site 1215088016254 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 1215088016255 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1215088016256 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1215088016257 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088016258 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1215088016259 AAA domain; Region: AAA_21; pfam13304 1215088016260 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1215088016261 Walker B; other site 1215088016262 D-loop; other site 1215088016263 H-loop/switch region; other site 1215088016264 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1215088016265 classical (c) SDRs; Region: SDR_c; cd05233 1215088016266 NAD(P) binding site [chemical binding]; other site 1215088016267 active site 1215088016268 Ethanolamine utilisation protein, EutH; Region: EutH; cl01248 1215088016269 SdiA-regulated; Region: SdiA-regulated; pfam06977 1215088016270 SdiA-regulated; Region: SdiA-regulated; cd09971 1215088016271 putative active site [active] 1215088016272 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1215088016273 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 1215088016274 Ligand Binding Site [chemical binding]; other site 1215088016275 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 1215088016276 Ligand Binding Site [chemical binding]; other site 1215088016277 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1215088016278 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1215088016279 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1215088016280 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 1215088016281 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 1215088016282 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 1215088016283 putative mercury resistance protein; Provisional; Region: PRK13747 1215088016284 transcriptional regulator MerD; Provisional; Region: PRK13749 1215088016285 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 1215088016286 DNA binding residues [nucleotide binding] 1215088016287 putative dimer interface [polypeptide binding]; other site 1215088016288 integrase/recombinase; Provisional; Region: PRK15417 1215088016289 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1215088016290 Int/Topo IB signature motif; other site 1215088016291 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 1215088016292 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1215088016293 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1215088016294 Integrase core domain; Region: rve; pfam00665 1215088016295 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1215088016296 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088016297 Coenzyme A binding pocket [chemical binding]; other site 1215088016298 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 1215088016299 dihydropteroate synthase; Region: DHPS; TIGR01496 1215088016300 substrate binding pocket [chemical binding]; other site 1215088016301 dimer interface [polypeptide binding]; other site 1215088016302 inhibitor binding site; inhibition site 1215088016303 integrase/recombinase; Provisional; Region: PRK15417 1215088016304 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1215088016305 Int/Topo IB signature motif; other site 1215088016306 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 1215088016307 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1215088016308 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1215088016309 catalytic residues [active] 1215088016310 catalytic nucleophile [active] 1215088016311 Presynaptic Site I dimer interface [polypeptide binding]; other site 1215088016312 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1215088016313 Synaptic Flat tetramer interface [polypeptide binding]; other site 1215088016314 Synaptic Site I dimer interface [polypeptide binding]; other site 1215088016315 DNA binding site [nucleotide binding] 1215088016316 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1215088016317 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1215088016318 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1215088016319 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088016320 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1215088016321 putative substrate translocation pore; other site 1215088016322 EamA-like transporter family; Region: EamA; pfam00892 1215088016323 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1215088016324 EamA-like transporter family; Region: EamA; pfam00892 1215088016325 Replication protein C (RepC); Region: RepC; pfam06504 1215088016326 dihydropteroate synthase; Region: DHPS; TIGR01496 1215088016327 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 1215088016328 substrate binding pocket [chemical binding]; other site 1215088016329 dimer interface [polypeptide binding]; other site 1215088016330 inhibitor binding site; inhibition site 1215088016331 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; pfam04655 1215088016332 Aminoglycoside 3'-phosphotransferase (APH). The APH 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), RIO kinases, actin-fragmin...; Region: APH; cd05150 1215088016333 Phosphotransferase enzyme family; Region: APH; pfam01636 1215088016334 active site 1215088016335 ATP binding site [chemical binding]; other site 1215088016336 antibiotic binding site [chemical binding]; other site 1215088016337 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1215088016338 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 1215088016339 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1215088016340 DNA-binding interface [nucleotide binding]; DNA binding site 1215088016341 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1215088016342 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1215088016343 Integrase core domain; Region: rve; pfam00665 1215088016344 Aminoglycoside 3'-phosphotransferase (APH). The APH 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), RIO kinases, actin-fragmin...; Region: APH; cd05150 1215088016345 active site 1215088016346 antibiotic binding site [chemical binding]; other site 1215088016347 Phosphotransferase enzyme family; Region: APH; pfam01636 1215088016348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1215088016349 Transposase; Region: HTH_Tnp_1; cl17663 1215088016350 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 1215088016351 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 1215088016352 non-specific DNA binding site [nucleotide binding]; other site 1215088016353 salt bridge; other site 1215088016354 sequence-specific DNA binding site [nucleotide binding]; other site 1215088016355 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1215088016356 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1215088016357 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1215088016358 catalytic residues [active] 1215088016359 catalytic nucleophile [active] 1215088016360 Presynaptic Site I dimer interface [polypeptide binding]; other site 1215088016361 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1215088016362 Synaptic Flat tetramer interface [polypeptide binding]; other site 1215088016363 Synaptic Site I dimer interface [polypeptide binding]; other site 1215088016364 DNA binding site [nucleotide binding] 1215088016365 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1215088016366 DNA-binding interface [nucleotide binding]; DNA binding site 1215088016367 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1215088016368 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1215088016369 photolyase PhrII; Region: phr2; TIGR00591 1215088016370 Integrase core domain; Region: rve; pfam00665 1215088016371 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1215088016372 Bacterial TniB protein; Region: TniB; pfam05621 1215088016373 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1215088016374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088016375 Coenzyme A binding pocket [chemical binding]; other site 1215088016376 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 1215088016377 dihydropteroate synthase; Region: DHPS; TIGR01496 1215088016378 substrate binding pocket [chemical binding]; other site 1215088016379 dimer interface [polypeptide binding]; other site 1215088016380 inhibitor binding site; inhibition site 1215088016381 Small Multidrug Resistance protein; Region: Multi_Drug_Res; pfam00893 1215088016382 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1215088016383 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1215088016384 putative substrate translocation pore; other site 1215088016385 aminoglycoside resistance protein; Provisional; Region: PRK13746 1215088016386 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1215088016387 active site 1215088016388 NTP binding site [chemical binding]; other site 1215088016389 metal binding triad [ion binding]; metal-binding site 1215088016390 antibiotic binding site [chemical binding]; other site 1215088016391 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 1215088016392 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1215088016393 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1215088016394 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1215088016395 Coenzyme A binding pocket [chemical binding]; other site 1215088016396 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1215088016397 integrase/recombinase; Provisional; Region: PRK15417 1215088016398 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1215088016399 Int/Topo IB signature motif; other site 1215088016400 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 1215088016401 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1215088016402 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1215088016403 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1215088016404 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1215088016405 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1215088016406 catalytic residues [active] 1215088016407 catalytic nucleophile [active] 1215088016408 Presynaptic Site I dimer interface [polypeptide binding]; other site 1215088016409 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1215088016410 Synaptic Flat tetramer interface [polypeptide binding]; other site 1215088016411 Synaptic Site I dimer interface [polypeptide binding]; other site 1215088016412 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1215088016413 DNA-binding interface [nucleotide binding]; DNA binding site 1215088016414 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1215088016415 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1215088016416 catalytic residues [active] 1215088016417 catalytic nucleophile [active] 1215088016418 Presynaptic Site I dimer interface [polypeptide binding]; other site 1215088016419 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1215088016420 Synaptic Flat tetramer interface [polypeptide binding]; other site 1215088016421 Synaptic Site I dimer interface [polypeptide binding]; other site 1215088016422 DNA binding site [nucleotide binding] 1215088016423 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1215088016424 DNA-binding interface [nucleotide binding]; DNA binding site 1215088016425 Replication initiator protein A; Region: RPA; pfam10134 1215088016426 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1215088016427 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1215088016428 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1215088016429 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1215088016430 oligomeric interface; other site 1215088016431 putative active site [active] 1215088016432 homodimer interface [polypeptide binding]; other site 1215088016433 Domain of unknown function (DUF932); Region: DUF932; pfam06067 1215088016434 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1215088016435 SprT homologues; Region: SprT; cl01182 1215088016436 SprT-like family; Region: SprT-like; pfam10263 1215088016437 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 1215088016438 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 1215088016439 Walker A motif; other site 1215088016440 ATP binding site [chemical binding]; other site 1215088016441 Walker B motif; other site 1215088016442 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1215088016443 TrwC relaxase; Region: TrwC; pfam08751 1215088016444 AAA domain; Region: AAA_30; pfam13604 1215088016445 Family description; Region: UvrD_C_2; pfam13538 1215088016446 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 1215088016447 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 1215088016448 non-specific DNA binding site [nucleotide binding]; other site 1215088016449 salt bridge; other site 1215088016450 sequence-specific DNA binding site [nucleotide binding]; other site 1215088016451 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1215088016452 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1215088016453 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1215088016454 catalytic residues [active] 1215088016455 catalytic nucleophile [active] 1215088016456 Presynaptic Site I dimer interface [polypeptide binding]; other site 1215088016457 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1215088016458 Synaptic Flat tetramer interface [polypeptide binding]; other site 1215088016459 Synaptic Site I dimer interface [polypeptide binding]; other site 1215088016460 DNA binding site [nucleotide binding] 1215088016461 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1215088016462 DNA-binding interface [nucleotide binding]; DNA binding site 1215088016463 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1215088016464 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1215088016465 beta-lactamase TEM; Provisional; Region: PRK15442 1215088016466 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1215088016467 putative transcriptional regulator MerR; Provisional; Region: PRK13752 1215088016468 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1215088016469 DNA binding residues [nucleotide binding] 1215088016470 dimer interface [polypeptide binding]; other site 1215088016471 mercury binding site [ion binding]; other site 1215088016472 putative mercuric transport protein; Provisional; Region: PRK13751 1215088016473 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 1215088016474 metal-binding site [ion binding] 1215088016475 putative mercuric reductase; Provisional; Region: PRK13748 1215088016476 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 1215088016477 metal-binding site [ion binding] 1215088016478 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1215088016479 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1215088016480 transcriptional regulator MerD; Provisional; Region: PRK13749 1215088016481 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 1215088016482 DNA binding residues [nucleotide binding] 1215088016483 putative dimer interface [polypeptide binding]; other site 1215088016484 putative mercury resistance protein; Provisional; Region: PRK13747 1215088016485 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 1215088016486 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 1215088016487 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1215088016488 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1215088016489 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1215088016490 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 1215088016491 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 1215088016492 Ligand Binding Site [chemical binding]; other site 1215088016493 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 1215088016494 Ligand Binding Site [chemical binding]; other site 1215088016495 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1215088016496 integrase/recombinase; Provisional; Region: PRK15417 1215088016497 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1215088016498 Int/Topo IB signature motif; other site 1215088016499 Aminoglycoside-2''-adenylyltransferase; Region: Aminoglyc_resit; pfam10706 1215088016500 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1215088016501 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1215088016502 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1215088016503 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1215088016504 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1215088016505 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1215088016506 catalytic residues [active] 1215088016507 catalytic nucleophile [active] 1215088016508 Presynaptic Site I dimer interface [polypeptide binding]; other site 1215088016509 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1215088016510 Synaptic Flat tetramer interface [polypeptide binding]; other site 1215088016511 Synaptic Site I dimer interface [polypeptide binding]; other site 1215088016512 DNA binding site [nucleotide binding] 1215088016513 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1215088016514 DNA-binding interface [nucleotide binding]; DNA binding site 1215088016515 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1215088016516 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526