-- dump date 20140619_042715 -- class Genbank::misc_feature -- table misc_feature_note -- id note 290402000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 290402000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 290402000003 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 290402000004 Walker A motif; other site 290402000005 ATP binding site [chemical binding]; other site 290402000006 Walker B motif; other site 290402000007 arginine finger; other site 290402000008 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 290402000009 DnaA box-binding interface [nucleotide binding]; other site 290402000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 290402000011 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 290402000012 putative DNA binding surface [nucleotide binding]; other site 290402000013 dimer interface [polypeptide binding]; other site 290402000014 beta-clamp/clamp loader binding surface; other site 290402000015 beta-clamp/translesion DNA polymerase binding surface; other site 290402000016 S4 domain; Region: S4_2; pfam13275 290402000017 recombination protein F; Reviewed; Region: recF; PRK00064 290402000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 290402000019 Walker A/P-loop; other site 290402000020 ATP binding site [chemical binding]; other site 290402000021 Q-loop/lid; other site 290402000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402000023 ABC transporter signature motif; other site 290402000024 Walker B; other site 290402000025 D-loop; other site 290402000026 H-loop/switch region; other site 290402000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 290402000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402000029 Mg2+ binding site [ion binding]; other site 290402000030 G-X-G motif; other site 290402000031 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 290402000032 anchoring element; other site 290402000033 dimer interface [polypeptide binding]; other site 290402000034 ATP binding site [chemical binding]; other site 290402000035 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 290402000036 active site 290402000037 putative metal-binding site [ion binding]; other site 290402000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 290402000039 DNA gyrase subunit A; Validated; Region: PRK05560 290402000040 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 290402000041 CAP-like domain; other site 290402000042 active site 290402000043 primary dimer interface [polypeptide binding]; other site 290402000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290402000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290402000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290402000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290402000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290402000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290402000050 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 290402000051 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 290402000052 HTH domain; Region: HTH_11; pfam08279 290402000053 3H domain; Region: 3H; pfam02829 290402000054 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290402000055 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 290402000056 Protein of unknown function (DUF1667); Region: DUF1667; cl17602 290402000057 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290402000058 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290402000059 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 290402000060 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 290402000061 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 290402000062 Part of AAA domain; Region: AAA_19; pfam13245 290402000063 Family description; Region: UvrD_C_2; pfam13538 290402000064 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 290402000065 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290402000066 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402000067 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 290402000068 dimer interface [polypeptide binding]; other site 290402000069 phosphorylation site [posttranslational modification] 290402000070 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402000071 ATP binding site [chemical binding]; other site 290402000072 Mg2+ binding site [ion binding]; other site 290402000073 G-X-G motif; other site 290402000074 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 290402000075 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402000076 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402000077 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 290402000078 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 290402000079 active site 290402000080 motif I; other site 290402000081 motif II; other site 290402000082 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 290402000083 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402000084 Walker A/P-loop; other site 290402000085 ATP binding site [chemical binding]; other site 290402000086 Q-loop/lid; other site 290402000087 ABC transporter signature motif; other site 290402000088 Walker B; other site 290402000089 D-loop; other site 290402000090 H-loop/switch region; other site 290402000091 ABC transporter; Region: ABC_tran_2; pfam12848 290402000092 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402000093 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 290402000094 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 290402000095 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 290402000096 gamma-glutamyl kinase; Provisional; Region: PRK05429 290402000097 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 290402000098 nucleotide binding site [chemical binding]; other site 290402000099 homotetrameric interface [polypeptide binding]; other site 290402000100 putative phosphate binding site [ion binding]; other site 290402000101 putative allosteric binding site; other site 290402000102 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 290402000103 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 290402000104 putative catalytic cysteine [active] 290402000105 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 290402000106 active site 290402000107 dimer interfaces [polypeptide binding]; other site 290402000108 catalytic residues [active] 290402000109 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 290402000110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290402000111 NAD(P) binding site [chemical binding]; other site 290402000112 active site 290402000113 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 290402000114 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 290402000115 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 290402000116 catalytic site [active] 290402000117 subunit interface [polypeptide binding]; other site 290402000118 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 290402000119 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290402000120 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 290402000121 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 290402000122 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290402000123 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290402000124 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 290402000125 IMP binding site; other site 290402000126 dimer interface [polypeptide binding]; other site 290402000127 interdomain contacts; other site 290402000128 partial ornithine binding site; other site 290402000129 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 290402000130 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402000131 Zn2+ binding site [ion binding]; other site 290402000132 Mg2+ binding site [ion binding]; other site 290402000133 glutamate racemase; Provisional; Region: PRK00865 290402000134 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 290402000135 active site 290402000136 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 290402000137 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402000138 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 290402000139 non-specific DNA binding site [nucleotide binding]; other site 290402000140 salt bridge; other site 290402000141 sequence-specific DNA binding site [nucleotide binding]; other site 290402000142 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 290402000143 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 290402000144 active site 290402000145 catalytic triad [active] 290402000146 Stage II sporulation protein; Region: SpoIID; pfam08486 290402000147 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 290402000148 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290402000149 Radical SAM superfamily; Region: Radical_SAM; pfam04055 290402000150 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 290402000151 FeS/SAM binding site; other site 290402000152 Uncharacterized membrane protein [Function unknown]; Region: COG3949 290402000153 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 290402000154 2-phosphosulfolactate phosphatase; Provisional; Region: PRK00886 290402000155 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 290402000156 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 290402000157 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402000158 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402000159 active site 290402000160 phosphorylation site [posttranslational modification] 290402000161 intermolecular recognition site; other site 290402000162 dimerization interface [polypeptide binding]; other site 290402000163 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 290402000164 DNA binding site [nucleotide binding] 290402000165 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402000166 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 290402000167 dimer interface [polypeptide binding]; other site 290402000168 phosphorylation site [posttranslational modification] 290402000169 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402000170 ATP binding site [chemical binding]; other site 290402000171 Mg2+ binding site [ion binding]; other site 290402000172 G-X-G motif; other site 290402000173 Predicted membrane protein (DUF2085); Region: DUF2085; pfam09858 290402000174 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 290402000175 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 290402000176 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 290402000177 HIGH motif; other site 290402000178 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 290402000179 active site 290402000180 KMSKS motif; other site 290402000181 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 290402000182 tRNA binding surface [nucleotide binding]; other site 290402000183 anticodon binding site; other site 290402000184 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402000185 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402000186 DNA binding site [nucleotide binding] 290402000187 domain linker motif; other site 290402000188 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 290402000189 dimerization interface [polypeptide binding]; other site 290402000190 ligand binding site [chemical binding]; other site 290402000191 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402000192 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 290402000193 dimerization interface [polypeptide binding]; other site 290402000194 putative Zn2+ binding site [ion binding]; other site 290402000195 putative DNA binding site [nucleotide binding]; other site 290402000196 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 290402000197 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290402000198 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 290402000199 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 290402000200 proline aminopeptidase P II; Provisional; Region: PRK10879 290402000201 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 290402000202 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 290402000203 active site 290402000204 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290402000205 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290402000206 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 290402000207 active site 290402000208 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 290402000209 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 290402000210 HIGH motif; other site 290402000211 active site 290402000212 KMSKS motif; other site 290402000213 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 290402000214 tRNA binding surface [nucleotide binding]; other site 290402000215 anticodon binding site; other site 290402000216 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 290402000217 dimer interface [polypeptide binding]; other site 290402000218 putative tRNA-binding site [nucleotide binding]; other site 290402000219 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 290402000220 active site 290402000221 Domain of unknown function (DUF348); Region: DUF348; pfam03990 290402000222 Domain of unknown function (DUF348); Region: DUF348; pfam03990 290402000223 G5 domain; Region: G5; pfam07501 290402000224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 290402000225 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 290402000226 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 290402000227 putative active site [active] 290402000228 putative metal binding site [ion binding]; other site 290402000229 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 290402000230 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 290402000231 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 290402000232 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 290402000233 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 290402000234 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 290402000235 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 290402000236 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 290402000237 EDD domain protein, DegV family; Region: DegV; TIGR00762 290402000238 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 290402000239 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 290402000240 ATP cone domain; Region: ATP-cone; pfam03477 290402000241 Class III ribonucleotide reductase; Region: RNR_III; cd01675 290402000242 effector binding site; other site 290402000243 active site 290402000244 Zn binding site [ion binding]; other site 290402000245 glycine loop; other site 290402000246 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 290402000247 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 290402000248 active site 290402000249 catalytic residues [active] 290402000250 metal binding site [ion binding]; metal-binding site 290402000251 aconitate hydratase; Validated; Region: PRK07229 290402000252 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 290402000253 substrate binding site [chemical binding]; other site 290402000254 ligand binding site [chemical binding]; other site 290402000255 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 290402000256 substrate binding site [chemical binding]; other site 290402000257 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 290402000258 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 290402000259 FeS/SAM binding site; other site 290402000260 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 290402000261 active site 290402000262 DNA binding site [nucleotide binding] 290402000263 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 290402000264 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 290402000265 Ligand binding site; other site 290402000266 Putative Catalytic site; other site 290402000267 DXD motif; other site 290402000268 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 290402000269 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402000270 Zn2+ binding site [ion binding]; other site 290402000271 Mg2+ binding site [ion binding]; other site 290402000272 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 290402000273 homodimer interface [polypeptide binding]; other site 290402000274 substrate-cofactor binding pocket; other site 290402000275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402000276 catalytic residue [active] 290402000277 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 290402000278 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 290402000279 putative dimer interface [polypeptide binding]; other site 290402000280 putative anticodon binding site; other site 290402000281 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 290402000282 homodimer interface [polypeptide binding]; other site 290402000283 motif 1; other site 290402000284 motif 2; other site 290402000285 active site 290402000286 motif 3; other site 290402000287 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 290402000288 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290402000289 active site 290402000290 metal binding site [ion binding]; metal-binding site 290402000291 homotetramer interface [polypeptide binding]; other site 290402000292 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290402000293 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 290402000294 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290402000295 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290402000296 pur operon repressor; Provisional; Region: PRK09213 290402000297 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 290402000298 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 290402000299 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402000300 active site 290402000301 regulatory protein SpoVG; Reviewed; Region: PRK13259 290402000302 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 290402000303 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 290402000304 Substrate binding site; other site 290402000305 Mg++ binding site; other site 290402000306 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 290402000307 active site 290402000308 substrate binding site [chemical binding]; other site 290402000309 CoA binding site [chemical binding]; other site 290402000310 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 290402000311 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 290402000312 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402000313 active site 290402000314 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402000315 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402000316 active site 290402000317 phosphorylation site [posttranslational modification] 290402000318 intermolecular recognition site; other site 290402000319 dimerization interface [polypeptide binding]; other site 290402000320 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 290402000321 DNA binding site [nucleotide binding] 290402000322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402000323 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 290402000324 dimerization interface [polypeptide binding]; other site 290402000325 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 290402000326 dimer interface [polypeptide binding]; other site 290402000327 phosphorylation site [posttranslational modification] 290402000328 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402000329 ATP binding site [chemical binding]; other site 290402000330 Mg2+ binding site [ion binding]; other site 290402000331 G-X-G motif; other site 290402000332 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 290402000333 putative active site [active] 290402000334 catalytic residue [active] 290402000335 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 290402000336 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 290402000337 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 290402000338 ATP binding site [chemical binding]; other site 290402000339 putative Mg++ binding site [ion binding]; other site 290402000340 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 290402000341 nucleotide binding region [chemical binding]; other site 290402000342 ATP-binding site [chemical binding]; other site 290402000343 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 290402000344 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 290402000345 SurA N-terminal domain; Region: SurA_N_3; cl07813 290402000346 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 290402000347 stage V sporulation protein T; Region: spore_V_T; TIGR02851 290402000348 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 290402000349 stage V sporulation protein B; Region: spore_V_B; TIGR02900 290402000350 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 290402000351 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 290402000352 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 290402000353 putative SAM binding site [chemical binding]; other site 290402000354 putative homodimer interface [polypeptide binding]; other site 290402000355 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 290402000356 homodimer interface [polypeptide binding]; other site 290402000357 metal binding site [ion binding]; metal-binding site 290402000358 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 290402000359 homodimer interface [polypeptide binding]; other site 290402000360 active site 290402000361 putative chemical substrate binding site [chemical binding]; other site 290402000362 metal binding site [ion binding]; metal-binding site 290402000363 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 290402000364 IHF dimer interface [polypeptide binding]; other site 290402000365 IHF - DNA interface [nucleotide binding]; other site 290402000366 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 290402000367 RNA binding surface [nucleotide binding]; other site 290402000368 YabP family; Region: YabP; cl06766 290402000369 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 290402000370 Septum formation initiator; Region: DivIC; pfam04977 290402000371 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 290402000372 hypothetical protein; Provisional; Region: PRK05807 290402000373 S1_RPS1_repeat_hs4: 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_hs4; cd05692 290402000374 RNA binding site [nucleotide binding]; other site 290402000375 stage II sporulation protein E; Region: spore_II_E; TIGR02865 290402000376 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 290402000377 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 290402000378 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 290402000379 Ligand Binding Site [chemical binding]; other site 290402000380 TilS substrate C-terminal domain; Region: TilS_C; smart00977 290402000381 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402000382 active site 290402000383 FtsH Extracellular; Region: FtsH_ext; pfam06480 290402000384 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 290402000385 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 290402000386 Walker A motif; other site 290402000387 ATP binding site [chemical binding]; other site 290402000388 Walker B motif; other site 290402000389 arginine finger; other site 290402000390 Peptidase family M41; Region: Peptidase_M41; pfam01434 290402000391 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 290402000392 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 290402000393 Potassium binding sites [ion binding]; other site 290402000394 Cesium cation binding sites [ion binding]; other site 290402000395 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290402000396 nucleotide binding site [chemical binding]; other site 290402000397 Type III pantothenate kinase; Region: Pan_kinase; cl17198 290402000398 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 290402000399 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 290402000400 FMN binding site [chemical binding]; other site 290402000401 active site 290402000402 catalytic residues [active] 290402000403 substrate binding site [chemical binding]; other site 290402000404 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 290402000405 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 290402000406 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 290402000407 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 290402000408 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 290402000409 dimer interface [polypeptide binding]; other site 290402000410 putative anticodon binding site; other site 290402000411 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 290402000412 motif 1; other site 290402000413 active site 290402000414 motif 2; other site 290402000415 motif 3; other site 290402000416 glycyl-tRNA synthetase; Provisional; Region: PRK04173 290402000417 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 290402000418 motif 1; other site 290402000419 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 290402000420 active site 290402000421 motif 2; other site 290402000422 motif 3; other site 290402000423 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 290402000424 anticodon binding site; other site 290402000425 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 290402000426 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290402000427 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 290402000428 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402000429 putative substrate translocation pore; other site 290402000430 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402000431 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 290402000432 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 290402000433 Cl binding site [ion binding]; other site 290402000434 oligomer interface [polypeptide binding]; other site 290402000435 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 290402000436 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 290402000437 metal binding site [ion binding]; metal-binding site 290402000438 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 290402000439 thymidylate kinase; Validated; Region: tmk; PRK00698 290402000440 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 290402000441 TMP-binding site; other site 290402000442 ATP-binding site [chemical binding]; other site 290402000443 Protein of unknown function (DUF970); Region: DUF970; pfam06153 290402000444 DNA polymerase III subunit delta'; Validated; Region: PRK05564 290402000445 DNA polymerase III subunit delta'; Validated; Region: PRK08485 290402000446 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 290402000447 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 290402000448 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 290402000449 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290402000450 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 290402000451 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 290402000452 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 290402000453 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 290402000454 UvrB/uvrC motif; Region: UVR; pfam02151 290402000455 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 290402000456 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 290402000457 ADP binding site [chemical binding]; other site 290402000458 phosphagen binding site; other site 290402000459 substrate specificity loop; other site 290402000460 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 290402000461 Clp amino terminal domain; Region: Clp_N; pfam02861 290402000462 Clp amino terminal domain; Region: Clp_N; pfam02861 290402000463 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 290402000464 Walker A motif; other site 290402000465 ATP binding site [chemical binding]; other site 290402000466 Walker B motif; other site 290402000467 arginine finger; other site 290402000468 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 290402000469 Walker A motif; other site 290402000470 ATP binding site [chemical binding]; other site 290402000471 Walker B motif; other site 290402000472 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 290402000473 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 290402000474 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290402000475 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402000476 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 290402000477 catalytic residues [active] 290402000478 DNA repair protein RadA; Provisional; Region: PRK11823 290402000479 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 290402000480 Walker A motif; other site 290402000481 ATP binding site [chemical binding]; other site 290402000482 Walker B motif; other site 290402000483 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 290402000484 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 290402000485 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 290402000486 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 290402000487 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 290402000488 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 290402000489 putative active site [active] 290402000490 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 290402000491 substrate binding site; other site 290402000492 dimer interface; other site 290402000493 prolyl-tRNA synthetase; Provisional; Region: PRK09194 290402000494 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 290402000495 dimer interface [polypeptide binding]; other site 290402000496 motif 1; other site 290402000497 active site 290402000498 motif 2; other site 290402000499 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 290402000500 putative deacylase active site [active] 290402000501 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 290402000502 active site 290402000503 motif 3; other site 290402000504 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 290402000505 anticodon binding site; other site 290402000506 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 290402000507 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 290402000508 active site 290402000509 HIGH motif; other site 290402000510 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 290402000511 KMSKS motif; other site 290402000512 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 290402000513 tRNA binding surface [nucleotide binding]; other site 290402000514 anticodon binding site; other site 290402000515 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 290402000516 active site 290402000517 metal binding site [ion binding]; metal-binding site 290402000518 dimerization interface [polypeptide binding]; other site 290402000519 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 290402000520 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 290402000521 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 290402000522 YacP-like NYN domain; Region: NYN_YacP; pfam05991 290402000523 RNA polymerase factor sigma-70; Validated; Region: PRK08295 290402000524 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402000525 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 290402000526 elongation factor Tu; Reviewed; Region: PRK00049 290402000527 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 290402000528 G1 box; other site 290402000529 GEF interaction site [polypeptide binding]; other site 290402000530 GTP/Mg2+ binding site [chemical binding]; other site 290402000531 Switch I region; other site 290402000532 G2 box; other site 290402000533 G3 box; other site 290402000534 Switch II region; other site 290402000535 G4 box; other site 290402000536 G5 box; other site 290402000537 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 290402000538 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 290402000539 Antibiotic Binding Site [chemical binding]; other site 290402000540 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 290402000541 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 290402000542 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 290402000543 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 290402000544 putative homodimer interface [polypeptide binding]; other site 290402000545 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 290402000546 heterodimer interface [polypeptide binding]; other site 290402000547 homodimer interface [polypeptide binding]; other site 290402000548 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 290402000549 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 290402000550 23S rRNA interface [nucleotide binding]; other site 290402000551 L7/L12 interface [polypeptide binding]; other site 290402000552 putative thiostrepton binding site; other site 290402000553 L25 interface [polypeptide binding]; other site 290402000554 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 290402000555 mRNA/rRNA interface [nucleotide binding]; other site 290402000556 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 290402000557 23S rRNA interface [nucleotide binding]; other site 290402000558 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 290402000559 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 290402000560 core dimer interface [polypeptide binding]; other site 290402000561 peripheral dimer interface [polypeptide binding]; other site 290402000562 L10 interface [polypeptide binding]; other site 290402000563 L11 interface [polypeptide binding]; other site 290402000564 putative EF-Tu interaction site [polypeptide binding]; other site 290402000565 putative EF-G interaction site [polypeptide binding]; other site 290402000566 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 290402000567 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 290402000568 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 290402000569 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 290402000570 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 290402000571 RPB1 interaction site [polypeptide binding]; other site 290402000572 RPB10 interaction site [polypeptide binding]; other site 290402000573 RPB11 interaction site [polypeptide binding]; other site 290402000574 RPB3 interaction site [polypeptide binding]; other site 290402000575 RPB12 interaction site [polypeptide binding]; other site 290402000576 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 290402000577 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 290402000578 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 290402000579 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 290402000580 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 290402000581 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 290402000582 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 290402000583 G-loop; other site 290402000584 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 290402000585 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 290402000586 DNA binding site [nucleotide binding] 290402000587 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 290402000588 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 290402000589 S17 interaction site [polypeptide binding]; other site 290402000590 S8 interaction site; other site 290402000591 16S rRNA interaction site [nucleotide binding]; other site 290402000592 streptomycin interaction site [chemical binding]; other site 290402000593 23S rRNA interaction site [nucleotide binding]; other site 290402000594 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 290402000595 30S ribosomal protein S7; Validated; Region: PRK05302 290402000596 elongation factor G; Reviewed; Region: PRK00007 290402000597 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 290402000598 G1 box; other site 290402000599 putative GEF interaction site [polypeptide binding]; other site 290402000600 GTP/Mg2+ binding site [chemical binding]; other site 290402000601 Switch I region; other site 290402000602 G2 box; other site 290402000603 G3 box; other site 290402000604 Switch II region; other site 290402000605 G4 box; other site 290402000606 G5 box; other site 290402000607 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 290402000608 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 290402000609 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 290402000610 elongation factor Tu; Reviewed; Region: PRK00049 290402000611 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 290402000612 G1 box; other site 290402000613 GEF interaction site [polypeptide binding]; other site 290402000614 GTP/Mg2+ binding site [chemical binding]; other site 290402000615 Switch I region; other site 290402000616 G2 box; other site 290402000617 G3 box; other site 290402000618 Switch II region; other site 290402000619 G4 box; other site 290402000620 G5 box; other site 290402000621 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 290402000622 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 290402000623 Antibiotic Binding Site [chemical binding]; other site 290402000624 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 290402000625 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 290402000626 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 290402000627 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 290402000628 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 290402000629 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 290402000630 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 290402000631 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 290402000632 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 290402000633 putative translocon binding site; other site 290402000634 protein-rRNA interface [nucleotide binding]; other site 290402000635 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 290402000636 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 290402000637 G-X-X-G motif; other site 290402000638 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 290402000639 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 290402000640 23S rRNA interface [nucleotide binding]; other site 290402000641 5S rRNA interface [nucleotide binding]; other site 290402000642 putative antibiotic binding site [chemical binding]; other site 290402000643 L25 interface [polypeptide binding]; other site 290402000644 L27 interface [polypeptide binding]; other site 290402000645 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 290402000646 23S rRNA interface [nucleotide binding]; other site 290402000647 putative translocon interaction site; other site 290402000648 signal recognition particle (SRP54) interaction site; other site 290402000649 L23 interface [polypeptide binding]; other site 290402000650 trigger factor interaction site; other site 290402000651 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 290402000652 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 290402000653 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 290402000654 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 290402000655 RNA binding site [nucleotide binding]; other site 290402000656 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 290402000657 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 290402000658 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 290402000659 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 290402000660 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 290402000661 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 290402000662 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 290402000663 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 290402000664 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 290402000665 5S rRNA interface [nucleotide binding]; other site 290402000666 L27 interface [polypeptide binding]; other site 290402000667 23S rRNA interface [nucleotide binding]; other site 290402000668 L5 interface [polypeptide binding]; other site 290402000669 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 290402000670 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 290402000671 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 290402000672 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 290402000673 23S rRNA binding site [nucleotide binding]; other site 290402000674 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 290402000675 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 290402000676 SecY translocase; Region: SecY; pfam00344 290402000677 adenylate kinase; Reviewed; Region: adk; PRK00279 290402000678 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 290402000679 AMP-binding site [chemical binding]; other site 290402000680 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 290402000681 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 290402000682 active site 290402000683 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 290402000684 RNA binding site [nucleotide binding]; other site 290402000685 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 290402000686 rRNA binding site [nucleotide binding]; other site 290402000687 predicted 30S ribosome binding site; other site 290402000688 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 290402000689 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 290402000690 30S ribosomal protein S13; Region: bact_S13; TIGR03631 290402000691 30S ribosomal protein S11; Validated; Region: PRK05309 290402000692 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 290402000693 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 290402000694 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 290402000695 RNA binding surface [nucleotide binding]; other site 290402000696 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 290402000697 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 290402000698 alphaNTD homodimer interface [polypeptide binding]; other site 290402000699 alphaNTD - beta interaction site [polypeptide binding]; other site 290402000700 alphaNTD - beta' interaction site [polypeptide binding]; other site 290402000701 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 290402000702 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 290402000703 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 290402000704 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 290402000705 Walker A/P-loop; other site 290402000706 ATP binding site [chemical binding]; other site 290402000707 Q-loop/lid; other site 290402000708 ABC transporter signature motif; other site 290402000709 Walker B; other site 290402000710 D-loop; other site 290402000711 H-loop/switch region; other site 290402000712 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 290402000713 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 290402000714 Walker A/P-loop; other site 290402000715 ATP binding site [chemical binding]; other site 290402000716 Q-loop/lid; other site 290402000717 ABC transporter signature motif; other site 290402000718 Walker B; other site 290402000719 D-loop; other site 290402000720 H-loop/switch region; other site 290402000721 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 290402000722 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 290402000723 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 290402000724 dimerization interface 3.5A [polypeptide binding]; other site 290402000725 active site 290402000726 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 290402000727 23S rRNA interface [nucleotide binding]; other site 290402000728 L3 interface [polypeptide binding]; other site 290402000729 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 290402000730 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 290402000731 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 290402000732 active site 290402000733 metal binding site [ion binding]; metal-binding site 290402000734 fumarate hydratase; Provisional; Region: PRK06246 290402000735 fumarate hydratase; Provisional; Region: PRK06842 290402000736 TPR repeat; Region: TPR_11; pfam13414 290402000737 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 290402000738 binding surface 290402000739 TPR motif; other site 290402000740 TPR repeat; Region: TPR_11; pfam13414 290402000741 Tetratricopeptide repeat; Region: TPR_12; pfam13424 290402000742 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402000743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402000744 active site 290402000745 phosphorylation site [posttranslational modification] 290402000746 intermolecular recognition site; other site 290402000747 dimerization interface [polypeptide binding]; other site 290402000748 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 290402000749 DNA binding site [nucleotide binding] 290402000750 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402000751 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 290402000752 dimer interface [polypeptide binding]; other site 290402000753 phosphorylation site [posttranslational modification] 290402000754 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402000755 ATP binding site [chemical binding]; other site 290402000756 Mg2+ binding site [ion binding]; other site 290402000757 G-X-G motif; other site 290402000758 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 290402000759 Class I ribonucleotide reductase; Region: RNR_I; cd01679 290402000760 active site 290402000761 dimer interface [polypeptide binding]; other site 290402000762 catalytic residues [active] 290402000763 effector binding site; other site 290402000764 R2 peptide binding site; other site 290402000765 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 290402000766 dimer interface [polypeptide binding]; other site 290402000767 putative radical transfer pathway; other site 290402000768 diiron center [ion binding]; other site 290402000769 tyrosyl radical; other site 290402000770 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 290402000771 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 290402000772 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290402000773 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 290402000774 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 290402000775 Tetratricopeptide repeat; Region: TPR_16; pfam13432 290402000776 binding surface 290402000777 TPR motif; other site 290402000778 TPR repeat; Region: TPR_11; pfam13414 290402000779 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 290402000780 isoaspartyl dipeptidase; Provisional; Region: PRK10657 290402000781 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 290402000782 active site 290402000783 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 290402000784 Uncharacterized conserved protein [Function unknown]; Region: COG1624 290402000785 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 290402000786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 290402000787 YbbR-like protein; Region: YbbR; pfam07949 290402000788 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 290402000789 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290402000790 phosphate butyryltransferase; Validated; Region: PRK05805 290402000791 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290402000792 nucleotide binding site [chemical binding]; other site 290402000793 Acetokinase family; Region: Acetate_kinase; cl17229 290402000794 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402000795 Zn2+ binding site [ion binding]; other site 290402000796 Mg2+ binding site [ion binding]; other site 290402000797 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 290402000798 dihydropteroate synthase; Region: DHPS; TIGR01496 290402000799 substrate binding pocket [chemical binding]; other site 290402000800 dimer interface [polypeptide binding]; other site 290402000801 inhibitor binding site; inhibition site 290402000802 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 290402000803 homooctamer interface [polypeptide binding]; other site 290402000804 active site 290402000805 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 290402000806 catalytic center binding site [active] 290402000807 ATP binding site [chemical binding]; other site 290402000808 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 290402000809 Trp repressor protein; Region: Trp_repressor; cl17266 290402000810 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 290402000811 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 290402000812 active site 290402000813 substrate binding site [chemical binding]; other site 290402000814 metal binding site [ion binding]; metal-binding site 290402000815 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 290402000816 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 290402000817 putative valine binding site [chemical binding]; other site 290402000818 dimer interface [polypeptide binding]; other site 290402000819 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 290402000820 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 290402000821 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 290402000822 active site 290402000823 catalytic residues [active] 290402000824 metal binding site [ion binding]; metal-binding site 290402000825 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 290402000826 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 290402000827 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 290402000828 substrate binding site [chemical binding]; other site 290402000829 ligand binding site [chemical binding]; other site 290402000830 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 290402000831 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 290402000832 substrate binding site [chemical binding]; other site 290402000833 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 290402000834 tartrate dehydrogenase; Region: TTC; TIGR02089 290402000835 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 290402000836 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290402000837 PYR/PP interface [polypeptide binding]; other site 290402000838 dimer interface [polypeptide binding]; other site 290402000839 TPP binding site [chemical binding]; other site 290402000840 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290402000841 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 290402000842 TPP-binding site [chemical binding]; other site 290402000843 dimer interface [polypeptide binding]; other site 290402000844 ketol-acid reductoisomerase; Provisional; Region: PRK05479 290402000845 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 290402000846 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 290402000847 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 290402000848 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 290402000849 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290402000850 Walker A motif; other site 290402000851 ATP binding site [chemical binding]; other site 290402000852 Walker B motif; other site 290402000853 arginine finger; other site 290402000854 PRD domain; Region: PRD; pfam00874 290402000855 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 290402000856 active pocket/dimerization site; other site 290402000857 active site 290402000858 phosphorylation site [posttranslational modification] 290402000859 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 290402000860 active site 290402000861 phosphorylation site [posttranslational modification] 290402000862 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 290402000863 active site 290402000864 phosphorylation site [posttranslational modification] 290402000865 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 290402000866 active site 290402000867 P-loop; other site 290402000868 phosphorylation site [posttranslational modification] 290402000869 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 290402000870 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 290402000871 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 290402000872 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 290402000873 putative NAD(P) binding site [chemical binding]; other site 290402000874 catalytic Zn binding site [ion binding]; other site 290402000875 structural Zn binding site [ion binding]; other site 290402000876 transketolase; Reviewed; Region: PRK05899 290402000877 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 290402000878 TPP-binding site [chemical binding]; other site 290402000879 dimer interface [polypeptide binding]; other site 290402000880 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 290402000881 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 290402000882 PYR/PP interface [polypeptide binding]; other site 290402000883 dimer interface [polypeptide binding]; other site 290402000884 TPP binding site [chemical binding]; other site 290402000885 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290402000886 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 290402000887 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 290402000888 substrate binding site [chemical binding]; other site 290402000889 hexamer interface [polypeptide binding]; other site 290402000890 metal binding site [ion binding]; metal-binding site 290402000891 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 290402000892 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 290402000893 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 290402000894 active site 290402000895 substrate binding site [chemical binding]; other site 290402000896 metal binding site [ion binding]; metal-binding site 290402000897 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 290402000898 GIY-YIG motif/motif A; other site 290402000899 putative active site [active] 290402000900 putative metal binding site [ion binding]; other site 290402000901 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290402000902 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290402000903 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290402000904 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 290402000905 dimer interface [polypeptide binding]; other site 290402000906 conserved gate region; other site 290402000907 putative PBP binding loops; other site 290402000908 ABC-ATPase subunit interface; other site 290402000909 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290402000910 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 290402000911 dimer interface [polypeptide binding]; other site 290402000912 conserved gate region; other site 290402000913 putative PBP binding loops; other site 290402000914 ABC-ATPase subunit interface; other site 290402000915 4-alpha-glucanotransferase; Provisional; Region: PRK14508 290402000916 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402000917 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402000918 DNA binding site [nucleotide binding] 290402000919 domain linker motif; other site 290402000920 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 290402000921 putative dimerization interface [polypeptide binding]; other site 290402000922 putative ligand binding site [chemical binding]; other site 290402000923 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 290402000924 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 290402000925 putative active site [active] 290402000926 putative metal binding site [ion binding]; other site 290402000927 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290402000928 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 290402000929 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402000930 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402000931 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290402000932 Walker A/P-loop; other site 290402000933 ATP binding site [chemical binding]; other site 290402000934 Q-loop/lid; other site 290402000935 ABC transporter signature motif; other site 290402000936 Walker B; other site 290402000937 D-loop; other site 290402000938 H-loop/switch region; other site 290402000939 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290402000940 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 290402000941 FtsX-like permease family; Region: FtsX; pfam02687 290402000942 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 290402000943 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 290402000944 homodimer interface [polypeptide binding]; other site 290402000945 substrate-cofactor binding pocket; other site 290402000946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402000947 catalytic residue [active] 290402000948 cystathionine beta-lyase; Provisional; Region: PRK08064 290402000949 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 290402000950 homodimer interface [polypeptide binding]; other site 290402000951 substrate-cofactor binding pocket; other site 290402000952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402000953 catalytic residue [active] 290402000954 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402000955 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 290402000956 dimerization interface [polypeptide binding]; other site 290402000957 putative Zn2+ binding site [ion binding]; other site 290402000958 putative DNA binding site [nucleotide binding]; other site 290402000959 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 290402000960 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 290402000961 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 290402000962 active site 290402000963 P-loop; other site 290402000964 phosphorylation site [posttranslational modification] 290402000965 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 290402000966 PRD domain; Region: PRD; pfam00874 290402000967 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 290402000968 active site 290402000969 P-loop; other site 290402000970 phosphorylation site [posttranslational modification] 290402000971 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 290402000972 active site 290402000973 phosphorylation site [posttranslational modification] 290402000974 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 290402000975 active site 290402000976 phosphorylation site [posttranslational modification] 290402000977 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 290402000978 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 290402000979 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 290402000980 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 290402000981 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 290402000982 glutaminase active site [active] 290402000983 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 290402000984 dimer interface [polypeptide binding]; other site 290402000985 active site 290402000986 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 290402000987 dimer interface [polypeptide binding]; other site 290402000988 active site 290402000989 serine O-acetyltransferase; Region: cysE; TIGR01172 290402000990 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 290402000991 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 290402000992 trimer interface [polypeptide binding]; other site 290402000993 active site 290402000994 substrate binding site [chemical binding]; other site 290402000995 CoA binding site [chemical binding]; other site 290402000996 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 290402000997 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 290402000998 putative FMN binding site [chemical binding]; other site 290402000999 NADPH bind site [chemical binding]; other site 290402001000 The adenylation domain of nonribosomal peptide synthetases (NRPS) similar to mycosubtilin synthase subunit A (MycA); Region: A_NRPS_MycA_like; cd05908 290402001001 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 290402001002 acyl-activating enzyme (AAE) consensus motif; other site 290402001003 putative AMP binding site [chemical binding]; other site 290402001004 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 290402001005 Condensation domain; Region: Condensation; pfam00668 290402001006 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 290402001007 Nonribosomal peptide synthase; Region: NRPS; pfam08415 290402001008 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 290402001009 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 290402001010 acyl-activating enzyme (AAE) consensus motif; other site 290402001011 AMP binding site [chemical binding]; other site 290402001012 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 290402001013 Condensation domain; Region: Condensation; pfam00668 290402001014 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 290402001015 Nonribosomal peptide synthase; Region: NRPS; pfam08415 290402001016 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 290402001017 acyl-activating enzyme (AAE) consensus motif; other site 290402001018 AMP binding site [chemical binding]; other site 290402001019 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 290402001020 Condensation domain; Region: Condensation; pfam00668 290402001021 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 290402001022 Nonribosomal peptide synthase; Region: NRPS; pfam08415 290402001023 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 290402001024 acyl-activating enzyme (AAE) consensus motif; other site 290402001025 AMP binding site [chemical binding]; other site 290402001026 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 290402001027 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 290402001028 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 290402001029 active site 290402001030 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 290402001031 Condensation domain; Region: Condensation; pfam00668 290402001032 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 290402001033 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 290402001034 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 290402001035 thioester reductase domain; Region: Thioester-redct; TIGR01746 290402001036 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 290402001037 putative NAD(P) binding site [chemical binding]; other site 290402001038 active site 290402001039 putative substrate binding site [chemical binding]; other site 290402001040 Peptidase family U32; Region: Peptidase_U32; pfam01136 290402001041 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 290402001042 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290402001043 acyl-activating enzyme (AAE) consensus motif; other site 290402001044 AMP binding site [chemical binding]; other site 290402001045 active site 290402001046 CoA binding site [chemical binding]; other site 290402001047 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 290402001048 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 290402001049 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 290402001050 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 290402001051 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 290402001052 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402001053 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402001054 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402001055 putative substrate translocation pore; other site 290402001056 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402001057 HlyD family secretion protein; Region: HlyD_2; pfam12700 290402001058 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290402001059 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402001060 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402001061 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290402001062 Walker A/P-loop; other site 290402001063 ATP binding site [chemical binding]; other site 290402001064 Q-loop/lid; other site 290402001065 ABC transporter signature motif; other site 290402001066 Walker B; other site 290402001067 D-loop; other site 290402001068 H-loop/switch region; other site 290402001069 FtsX-like permease family; Region: FtsX; pfam02687 290402001070 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 290402001071 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402001072 active site 290402001073 phosphorylation site [posttranslational modification] 290402001074 intermolecular recognition site; other site 290402001075 dimerization interface [polypeptide binding]; other site 290402001076 LytTr DNA-binding domain; Region: LytTR; smart00850 290402001077 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 290402001078 Accessory gene regulator B; Region: AgrB; pfam04647 290402001079 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 290402001080 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402001081 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290402001082 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290402001083 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402001084 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402001085 cyanate transporter; Region: CynX; TIGR00896 290402001086 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402001087 putative substrate translocation pore; other site 290402001088 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 290402001089 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 290402001090 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 290402001091 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290402001092 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 290402001093 putative DNA binding site [nucleotide binding]; other site 290402001094 putative Zn2+ binding site [ion binding]; other site 290402001095 Putative cyclase; Region: Cyclase; pfam04199 290402001096 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402001097 MarR family; Region: MarR; pfam01047 290402001098 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402001099 dimer interface [polypeptide binding]; other site 290402001100 putative CheW interface [polypeptide binding]; other site 290402001101 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402001102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402001103 Walker A/P-loop; other site 290402001104 ATP binding site [chemical binding]; other site 290402001105 Q-loop/lid; other site 290402001106 ABC transporter signature motif; other site 290402001107 Walker B; other site 290402001108 D-loop; other site 290402001109 H-loop/switch region; other site 290402001110 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 290402001111 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 290402001112 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402001113 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402001114 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 290402001115 Cache domain; Region: Cache_1; pfam02743 290402001116 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 290402001117 dimerization interface [polypeptide binding]; other site 290402001118 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402001119 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402001120 dimer interface [polypeptide binding]; other site 290402001121 putative CheW interface [polypeptide binding]; other site 290402001122 Rubrerythrin [Energy production and conversion]; Region: COG1592 290402001123 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 290402001124 binuclear metal center [ion binding]; other site 290402001125 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 290402001126 iron binding site [ion binding]; other site 290402001127 HutD; Region: HutD; pfam05962 290402001128 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 290402001129 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 290402001130 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 290402001131 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 290402001132 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 290402001133 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 290402001134 active site 290402001135 dimer interface [polypeptide binding]; other site 290402001136 motif 1; other site 290402001137 motif 2; other site 290402001138 motif 3; other site 290402001139 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 290402001140 anticodon binding site; other site 290402001141 Cache domain; Region: Cache_1; pfam02743 290402001142 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402001143 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402001144 dimer interface [polypeptide binding]; other site 290402001145 putative CheW interface [polypeptide binding]; other site 290402001146 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 290402001147 active site 290402001148 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 290402001149 homotrimer interaction site [polypeptide binding]; other site 290402001150 zinc binding site [ion binding]; other site 290402001151 CDP-binding sites; other site 290402001152 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 290402001153 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 290402001154 putative active site [active] 290402001155 putative metal binding site [ion binding]; other site 290402001156 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 290402001157 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 290402001158 biotin synthase; Provisional; Region: PRK07094 290402001159 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 290402001160 FeS/SAM binding site; other site 290402001161 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 290402001162 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402001163 MarR family; Region: MarR; pfam01047 290402001164 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 290402001165 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 290402001166 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 290402001167 putative catalytic cysteine [active] 290402001168 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 290402001169 putative active site [active] 290402001170 metal binding site [ion binding]; metal-binding site 290402001171 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 290402001172 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 290402001173 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290402001174 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 290402001175 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 290402001176 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 290402001177 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402001178 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402001179 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402001180 dimer interface [polypeptide binding]; other site 290402001181 putative CheW interface [polypeptide binding]; other site 290402001182 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 290402001183 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 290402001184 active site 290402001185 nucleophile elbow; other site 290402001186 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290402001187 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402001188 DNA-binding site [nucleotide binding]; DNA binding site 290402001189 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 290402001190 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 290402001191 Ligand binding site [chemical binding]; other site 290402001192 Electron transfer flavoprotein domain; Region: ETF; pfam01012 290402001193 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 290402001194 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 290402001195 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 290402001196 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 290402001197 FAD binding domain; Region: FAD_binding_4; pfam01565 290402001198 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 290402001199 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 290402001200 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 290402001201 DNA binding residues [nucleotide binding] 290402001202 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 290402001203 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 290402001204 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 290402001205 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; cl15377 290402001206 FeS/SAM binding site; other site 290402001207 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 290402001208 active site 290402001209 intersubunit interactions; other site 290402001210 catalytic residue [active] 290402001211 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 290402001212 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 290402001213 Substrate binding site; other site 290402001214 Cupin domain; Region: Cupin_2; cl17218 290402001215 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 290402001216 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 290402001217 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 290402001218 CoA binding domain; Region: CoA_binding; pfam02629 290402001219 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 290402001220 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 290402001221 substrate binding site [chemical binding]; other site 290402001222 oxyanion hole (OAH) forming residues; other site 290402001223 trimer interface [polypeptide binding]; other site 290402001224 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290402001225 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 290402001226 FAD binding site [chemical binding]; other site 290402001227 homotetramer interface [polypeptide binding]; other site 290402001228 substrate binding pocket [chemical binding]; other site 290402001229 catalytic base [active] 290402001230 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 290402001231 Ligand binding site [chemical binding]; other site 290402001232 Electron transfer flavoprotein domain; Region: ETF; pfam01012 290402001233 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 290402001234 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 290402001235 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 290402001236 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 290402001237 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 290402001238 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 290402001239 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 290402001240 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 290402001241 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 290402001242 minor groove reading motif; other site 290402001243 helix-hairpin-helix signature motif; other site 290402001244 substrate binding pocket [chemical binding]; other site 290402001245 active site 290402001246 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 290402001247 4Fe-4S binding domain; Region: Fer4; pfam00037 290402001248 4Fe-4S binding domain; Region: Fer4; pfam00037 290402001249 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 290402001250 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 290402001251 oligomerisation interface [polypeptide binding]; other site 290402001252 mobile loop; other site 290402001253 roof hairpin; other site 290402001254 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 290402001255 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 290402001256 ring oligomerisation interface [polypeptide binding]; other site 290402001257 ATP/Mg binding site [chemical binding]; other site 290402001258 stacking interactions; other site 290402001259 hinge regions; other site 290402001260 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 290402001261 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 290402001262 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 290402001263 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 290402001264 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 290402001265 active site 290402001266 GMP synthase; Reviewed; Region: guaA; PRK00074 290402001267 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 290402001268 AMP/PPi binding site [chemical binding]; other site 290402001269 candidate oxyanion hole; other site 290402001270 catalytic triad [active] 290402001271 potential glutamine specificity residues [chemical binding]; other site 290402001272 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 290402001273 ATP Binding subdomain [chemical binding]; other site 290402001274 Ligand Binding sites [chemical binding]; other site 290402001275 Dimerization subdomain; other site 290402001276 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 290402001277 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 290402001278 HTH domain; Region: HTH_11; pfam08279 290402001279 HTH domain; Region: HTH_11; cl17392 290402001280 PRD domain; Region: PRD; pfam00874 290402001281 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 290402001282 active site 290402001283 P-loop; other site 290402001284 phosphorylation site [posttranslational modification] 290402001285 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 290402001286 active site 290402001287 phosphorylation site [posttranslational modification] 290402001288 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 290402001289 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 290402001290 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 290402001291 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 290402001292 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 290402001293 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 290402001294 active site 290402001295 intersubunit interactions; other site 290402001296 catalytic residue [active] 290402001297 PTS system, glucitol/sorbitol-specific IIA component; Region: gutA; TIGR00849 290402001298 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 290402001299 classical (c) SDRs; Region: SDR_c; cd05233 290402001300 NAD(P) binding site [chemical binding]; other site 290402001301 active site 290402001302 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 290402001303 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 290402001304 active site 290402001305 dimer interface [polypeptide binding]; other site 290402001306 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 290402001307 dimer interface [polypeptide binding]; other site 290402001308 active site 290402001309 hypothetical protein; Validated; Region: PRK00124 290402001310 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 290402001311 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 290402001312 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 290402001313 RNA polymerase Rpb3/RpoA insert domain; Region: RNA_pol_A_bac; pfam01000 290402001314 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 290402001315 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 290402001316 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 290402001317 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290402001318 catalytic residue [active] 290402001319 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 290402001320 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 290402001321 RNA binding surface [nucleotide binding]; other site 290402001322 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 290402001323 active site 290402001324 uracil binding [chemical binding]; other site 290402001325 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 290402001326 dimer interface [polypeptide binding]; other site 290402001327 FMN binding site [chemical binding]; other site 290402001328 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402001329 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402001330 MarR family; Region: MarR_2; pfam12802 290402001331 NifU-like domain; Region: NifU; pfam01106 290402001332 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 290402001333 dimerization interface [polypeptide binding]; other site 290402001334 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402001335 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402001336 dimer interface [polypeptide binding]; other site 290402001337 putative CheW interface [polypeptide binding]; other site 290402001338 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 290402001339 Part of AAA domain; Region: AAA_19; pfam13245 290402001340 Family description; Region: UvrD_C_2; pfam13538 290402001341 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 290402001342 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 290402001343 nucleotide binding pocket [chemical binding]; other site 290402001344 K-X-D-G motif; other site 290402001345 catalytic site [active] 290402001346 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 290402001347 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 290402001348 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 290402001349 Dimer interface [polypeptide binding]; other site 290402001350 BRCT sequence motif; other site 290402001351 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 290402001352 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 290402001353 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 290402001354 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 290402001355 dimerization interface [polypeptide binding]; other site 290402001356 putative ATP binding site [chemical binding]; other site 290402001357 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 290402001358 active site 290402001359 dimerization interface [polypeptide binding]; other site 290402001360 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 290402001361 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290402001362 active site 290402001363 metal binding site [ion binding]; metal-binding site 290402001364 homotetramer interface [polypeptide binding]; other site 290402001365 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 290402001366 S-adenosylmethionine binding site [chemical binding]; other site 290402001367 PAS domain S-box; Region: sensory_box; TIGR00229 290402001368 PAS domain; Region: PAS_8; pfam13188 290402001369 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402001370 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 290402001371 dimer interface [polypeptide binding]; other site 290402001372 phosphorylation site [posttranslational modification] 290402001373 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402001374 ATP binding site [chemical binding]; other site 290402001375 Mg2+ binding site [ion binding]; other site 290402001376 G-X-G motif; other site 290402001377 Hypothetical protein; Provisional; Region: PHA02951 290402001378 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 290402001379 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; pfam03738 290402001380 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 290402001381 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 290402001382 active site 290402001383 Zn binding site [ion binding]; other site 290402001384 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 290402001385 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 290402001386 NodB motif; other site 290402001387 active site 290402001388 catalytic site [active] 290402001389 Zn binding site [ion binding]; other site 290402001390 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 290402001391 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 290402001392 Predicted membrane protein [Function unknown]; Region: COG4905 290402001393 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 290402001394 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 290402001395 Sulfatase; Region: Sulfatase; pfam00884 290402001396 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; cl00436 290402001397 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 290402001398 CPxP motif; other site 290402001399 DsrE/DsrF-like family; Region: DrsE; cl00672 290402001400 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290402001401 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 290402001402 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 290402001403 active site 290402001404 catalytic triad [active] 290402001405 oxyanion hole [active] 290402001406 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 290402001407 UGMP family protein; Validated; Region: PRK09604 290402001408 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 290402001409 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290402001410 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 290402001411 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 290402001412 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 290402001413 protein binding site [polypeptide binding]; other site 290402001414 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 290402001415 methionine cluster; other site 290402001416 active site 290402001417 phosphorylation site [posttranslational modification] 290402001418 metal binding site [ion binding]; metal-binding site 290402001419 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290402001420 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290402001421 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 290402001422 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 290402001423 spore coat protein YutH; Region: spore_yutH; TIGR02905 290402001424 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 290402001425 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 290402001426 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 290402001427 substrate binding site [chemical binding]; other site 290402001428 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 290402001429 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290402001430 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 290402001431 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 290402001432 active site 290402001433 ATP binding site [chemical binding]; other site 290402001434 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 290402001435 substrate binding site [chemical binding]; other site 290402001436 YabG peptidase U57; Region: Peptidase_U57; pfam05582 290402001437 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 290402001438 catalytic residues [active] 290402001439 dimer interface [polypeptide binding]; other site 290402001440 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 290402001441 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 290402001442 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 290402001443 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 290402001444 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290402001445 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 290402001446 proposed catalytic triad [active] 290402001447 active site nucleophile [active] 290402001448 cyanophycin synthetase; Provisional; Region: PRK14016 290402001449 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 290402001450 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290402001451 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290402001452 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 290402001453 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 290402001454 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 290402001455 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 290402001456 CTP synthetase; Validated; Region: pyrG; PRK05380 290402001457 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 290402001458 Catalytic site [active] 290402001459 active site 290402001460 UTP binding site [chemical binding]; other site 290402001461 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 290402001462 active site 290402001463 putative oxyanion hole; other site 290402001464 catalytic triad [active] 290402001465 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 290402001466 transcription termination factor Rho; Provisional; Region: rho; PRK09376 290402001467 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 290402001468 RNA binding site [nucleotide binding]; other site 290402001469 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 290402001470 multimer interface [polypeptide binding]; other site 290402001471 Walker A motif; other site 290402001472 ATP binding site [chemical binding]; other site 290402001473 Walker B motif; other site 290402001474 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 290402001475 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 290402001476 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 290402001477 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 290402001478 thymidine kinase; Provisional; Region: PRK04296 290402001479 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 290402001480 ATP binding site [chemical binding]; other site 290402001481 Walker A motif; other site 290402001482 Walker B motif; other site 290402001483 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 290402001484 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 290402001485 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 290402001486 S-adenosylmethionine binding site [chemical binding]; other site 290402001487 peptide chain release factor 1; Validated; Region: prfA; PRK00591 290402001488 This domain is found in peptide chain release factors; Region: PCRF; smart00937 290402001489 RF-1 domain; Region: RF-1; pfam00472 290402001490 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 290402001491 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 290402001492 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 290402001493 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402001494 active site 290402001495 Deoxycytidylate deaminase [Nucleotide transport and metabolism]; Region: ComEB; COG2131 290402001496 active site 290402001497 Zn binding site [ion binding]; other site 290402001498 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 290402001499 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 290402001500 active site 290402001501 homodimer interface [polypeptide binding]; other site 290402001502 putative acyltransferase; Provisional; Region: PRK05790 290402001503 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 290402001504 dimer interface [polypeptide binding]; other site 290402001505 active site 290402001506 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 290402001507 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 290402001508 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 290402001509 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 290402001510 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 290402001511 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 290402001512 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 290402001513 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 290402001514 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 290402001515 beta subunit interaction interface [polypeptide binding]; other site 290402001516 Walker A motif; other site 290402001517 ATP binding site [chemical binding]; other site 290402001518 Walker B motif; other site 290402001519 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 290402001520 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 290402001521 core domain interface [polypeptide binding]; other site 290402001522 delta subunit interface [polypeptide binding]; other site 290402001523 epsilon subunit interface [polypeptide binding]; other site 290402001524 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 290402001525 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 290402001526 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 290402001527 alpha subunit interaction interface [polypeptide binding]; other site 290402001528 Walker A motif; other site 290402001529 ATP binding site [chemical binding]; other site 290402001530 Walker B motif; other site 290402001531 inhibitor binding site; inhibition site 290402001532 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 290402001533 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13450 290402001534 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 290402001535 gamma subunit interface [polypeptide binding]; other site 290402001536 epsilon subunit interface [polypeptide binding]; other site 290402001537 LBP interface [polypeptide binding]; other site 290402001538 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 290402001539 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 290402001540 hinge; other site 290402001541 active site 290402001542 stage II sporulation protein D; Region: spore_II_D; TIGR02870 290402001543 Stage II sporulation protein; Region: SpoIID; pfam08486 290402001544 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 290402001545 Peptidase family M23; Region: Peptidase_M23; pfam01551 290402001546 Stage III sporulation protein D; Region: SpoIIID; pfam12116 290402001547 rod shape-determining protein Mbl; Provisional; Region: PRK13928 290402001548 MreB and similar proteins; Region: MreB_like; cd10225 290402001549 nucleotide binding site [chemical binding]; other site 290402001550 Mg binding site [ion binding]; other site 290402001551 putative protofilament interaction site [polypeptide binding]; other site 290402001552 RodZ interaction site [polypeptide binding]; other site 290402001553 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 290402001554 S-adenosylmethionine synthetase; Validated; Region: PRK05250 290402001555 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 290402001556 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 290402001557 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 290402001558 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 290402001559 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 290402001560 AAA domain; Region: AAA_30; pfam13604 290402001561 Family description; Region: UvrD_C_2; pfam13538 290402001562 comF family protein; Region: comF; TIGR00201 290402001563 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402001564 active site 290402001565 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 290402001566 30S subunit binding site; other site 290402001567 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 290402001568 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 290402001569 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 290402001570 nucleotide binding region [chemical binding]; other site 290402001571 ATP-binding site [chemical binding]; other site 290402001572 SEC-C motif; Region: SEC-C; pfam02810 290402001573 peptide chain release factor 2; Provisional; Region: PRK05589 290402001574 This domain is found in peptide chain release factors; Region: PCRF; smart00937 290402001575 RF-1 domain; Region: RF-1; pfam00472 290402001576 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402001577 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402001578 active site 290402001579 phosphorylation site [posttranslational modification] 290402001580 intermolecular recognition site; other site 290402001581 dimerization interface [polypeptide binding]; other site 290402001582 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 290402001583 DNA binding site [nucleotide binding] 290402001584 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402001585 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 290402001586 dimerization interface [polypeptide binding]; other site 290402001587 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 290402001588 phosphorylation site [posttranslational modification] 290402001589 dimer interface [polypeptide binding]; other site 290402001590 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402001591 ATP binding site [chemical binding]; other site 290402001592 Mg2+ binding site [ion binding]; other site 290402001593 G-X-G motif; other site 290402001594 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 290402001595 Peptidase family M50; Region: Peptidase_M50; pfam02163 290402001596 active site 290402001597 putative substrate binding region [chemical binding]; other site 290402001598 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 290402001599 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 290402001600 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 290402001601 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 290402001602 RNA binding site [nucleotide binding]; other site 290402001603 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290402001604 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290402001605 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290402001606 EamA-like transporter family; Region: EamA; pfam00892 290402001607 EamA-like transporter family; Region: EamA; pfam00892 290402001608 Cupin domain; Region: Cupin_2; pfam07883 290402001609 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402001610 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402001611 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290402001612 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290402001613 nucleotide binding site [chemical binding]; other site 290402001614 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 290402001615 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 290402001616 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290402001617 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 290402001618 N- and C-terminal domain interface [polypeptide binding]; other site 290402001619 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 290402001620 active site 290402001621 putative catalytic site [active] 290402001622 metal binding site [ion binding]; metal-binding site 290402001623 ATP binding site [chemical binding]; other site 290402001624 carbohydrate binding site [chemical binding]; other site 290402001625 L-rhamnose isomerase; Provisional; Region: PRK01076 290402001626 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 290402001627 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 290402001628 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 290402001629 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 290402001630 NADP binding site [chemical binding]; other site 290402001631 homodimer interface [polypeptide binding]; other site 290402001632 active site 290402001633 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 290402001634 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 290402001635 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 290402001636 Metal-binding active site; metal-binding site 290402001637 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 290402001638 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 290402001639 Domain of unknown function (DUF718); Region: DUF718; cl01281 290402001640 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 290402001641 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 290402001642 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290402001643 rhamnulose-1-phosphate aldolase; Provisional; Region: PRK03634 290402001644 intersubunit interface [polypeptide binding]; other site 290402001645 active site 290402001646 Zn2+ binding site [ion binding]; other site 290402001647 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 290402001648 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 290402001649 dimer interface [polypeptide binding]; other site 290402001650 active site 290402001651 metal binding site [ion binding]; metal-binding site 290402001652 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 290402001653 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 290402001654 DNA binding site [nucleotide binding] 290402001655 active site 290402001656 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 290402001657 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290402001658 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 290402001659 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 290402001660 active site 290402001661 motif I; other site 290402001662 motif II; other site 290402001663 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 290402001664 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 290402001665 Transcriptional regulator [Transcription]; Region: IclR; COG1414 290402001666 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 290402001667 Bacterial transcriptional regulator; Region: IclR; pfam01614 290402001668 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 290402001669 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 290402001670 NADP binding site [chemical binding]; other site 290402001671 homodimer interface [polypeptide binding]; other site 290402001672 active site 290402001673 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290402001674 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 290402001675 substrate binding site [chemical binding]; other site 290402001676 ATP binding site [chemical binding]; other site 290402001677 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 290402001678 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 290402001679 active site 290402001680 intersubunit interface [polypeptide binding]; other site 290402001681 catalytic residue [active] 290402001682 Hemerythrin; Region: Hemerythrin; cd12107 290402001683 Fe binding site [ion binding]; other site 290402001684 Predicted membrane protein [Function unknown]; Region: COG3601 290402001685 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 290402001686 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 290402001687 Rubredoxin; Region: Rubredoxin; pfam00301 290402001688 iron binding site [ion binding]; other site 290402001689 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 290402001690 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 290402001691 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290402001692 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 290402001693 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402001694 Coenzyme A binding pocket [chemical binding]; other site 290402001695 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 290402001696 Glycoprotease family; Region: Peptidase_M22; pfam00814 290402001697 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 290402001698 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 290402001699 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 290402001700 intersubunit interface [polypeptide binding]; other site 290402001701 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 290402001702 homotrimer interaction site [polypeptide binding]; other site 290402001703 putative active site [active] 290402001704 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 290402001705 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 290402001706 FMN binding site [chemical binding]; other site 290402001707 substrate binding site [chemical binding]; other site 290402001708 putative catalytic residue [active] 290402001709 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 290402001710 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 290402001711 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 290402001712 active site 290402001713 metal binding site [ion binding]; metal-binding site 290402001714 DNA binding site [nucleotide binding] 290402001715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402001716 Walker A/P-loop; other site 290402001717 ATP binding site [chemical binding]; other site 290402001718 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 290402001719 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 290402001720 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 290402001721 intersubunit interface [polypeptide binding]; other site 290402001722 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 290402001723 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 290402001724 Walker A/P-loop; other site 290402001725 ATP binding site [chemical binding]; other site 290402001726 Q-loop/lid; other site 290402001727 ABC transporter signature motif; other site 290402001728 Walker B; other site 290402001729 D-loop; other site 290402001730 H-loop/switch region; other site 290402001731 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 290402001732 active site 290402001733 catalytic site [active] 290402001734 substrate binding site [chemical binding]; other site 290402001735 FOG: CBS domain [General function prediction only]; Region: COG0517 290402001736 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_30; cd04643 290402001737 phage shock protein A; Region: phageshock_pspA; TIGR02977 290402001738 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 290402001739 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 290402001740 RNA binding site [nucleotide binding]; other site 290402001741 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 290402001742 RNA binding site [nucleotide binding]; other site 290402001743 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 290402001744 RNA binding site [nucleotide binding]; other site 290402001745 S1_RPS1_repeat_hs4: 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_hs4; cd05692 290402001746 RNA binding site [nucleotide binding]; other site 290402001747 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 290402001748 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 290402001749 domain interfaces; other site 290402001750 active site 290402001751 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 290402001752 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 290402001753 metal binding site [ion binding]; metal-binding site 290402001754 dimer interface [polypeptide binding]; other site 290402001755 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 290402001756 NlpC/P60 family; Region: NLPC_P60; pfam00877 290402001757 Maf-like protein; Reviewed; Region: PRK00078 290402001758 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 290402001759 active site 290402001760 dimer interface [polypeptide binding]; other site 290402001761 hypothetical protein; Reviewed; Region: PRK00024 290402001762 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 290402001763 MPN+ (JAMM) motif; other site 290402001764 Zinc-binding site [ion binding]; other site 290402001765 rod shape-determining protein MreB; Provisional; Region: PRK13927 290402001766 MreB and similar proteins; Region: MreB_like; cd10225 290402001767 nucleotide binding site [chemical binding]; other site 290402001768 Mg binding site [ion binding]; other site 290402001769 putative protofilament interaction site [polypeptide binding]; other site 290402001770 RodZ interaction site [polypeptide binding]; other site 290402001771 rod shape-determining protein MreC; Provisional; Region: PRK13922 290402001772 rod shape-determining protein MreC; Region: MreC; pfam04085 290402001773 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 290402001774 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 290402001775 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 290402001776 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 290402001777 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 290402001778 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 290402001779 septum formation inhibitor; Reviewed; Region: minC; PRK00513 290402001780 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 290402001781 septum site-determining protein MinD; Region: minD_bact; TIGR01968 290402001782 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 290402001783 Switch I; other site 290402001784 Switch II; other site 290402001785 cell division topological specificity factor MinE; Provisional; Region: PRK13987 290402001786 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 290402001787 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 290402001788 Peptidase family M50; Region: Peptidase_M50; pfam02163 290402001789 active site 290402001790 putative substrate binding region [chemical binding]; other site 290402001791 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 290402001792 S-layer homology domain; Region: SLH; pfam00395 290402001793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 290402001794 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 290402001795 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 290402001796 FeS/SAM binding site; other site 290402001797 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 290402001798 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 290402001799 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 290402001800 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 290402001801 homodimer interface [polypeptide binding]; other site 290402001802 oligonucleotide binding site [chemical binding]; other site 290402001803 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 290402001804 hypothetical protein; Provisional; Region: PRK14553 290402001805 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 290402001806 GTPase CgtA; Reviewed; Region: obgE; PRK12297 290402001807 GTP1/OBG; Region: GTP1_OBG; pfam01018 290402001808 Obg GTPase; Region: Obg; cd01898 290402001809 G1 box; other site 290402001810 GTP/Mg2+ binding site [chemical binding]; other site 290402001811 Switch I region; other site 290402001812 G2 box; other site 290402001813 G3 box; other site 290402001814 Switch II region; other site 290402001815 G4 box; other site 290402001816 G5 box; other site 290402001817 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 290402001818 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 290402001819 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 290402001820 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 290402001821 active site 290402001822 (T/H)XGH motif; other site 290402001823 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402001824 Zn2+ binding site [ion binding]; other site 290402001825 Mg2+ binding site [ion binding]; other site 290402001826 Transcriptional regulator [Transcription]; Region: LytR; COG1316 290402001827 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 290402001828 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 290402001829 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 290402001830 active site 290402001831 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402001832 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402001833 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 290402001834 dimerization interface [polypeptide binding]; other site 290402001835 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 290402001836 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 290402001837 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 290402001838 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 290402001839 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 290402001840 SLBB domain; Region: SLBB; pfam10531 290402001841 comEA protein; Region: comE; TIGR01259 290402001842 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 290402001843 DNA methylase; Region: N6_N4_Mtase; cl17433 290402001844 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 290402001845 S-adenosylmethionine binding site [chemical binding]; other site 290402001846 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 290402001847 HTH domain; Region: HTH_11; pfam08279 290402001848 PRD domain; Region: PRD; pfam00874 290402001849 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 290402001850 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 290402001851 active site 290402001852 phosphorylation site [posttranslational modification] 290402001853 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 290402001854 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 290402001855 active site 290402001856 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 290402001857 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 290402001858 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 290402001859 active site 290402001860 P-loop; other site 290402001861 phosphorylation site [posttranslational modification] 290402001862 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 290402001863 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 290402001864 putative NAD(P) binding site [chemical binding]; other site 290402001865 catalytic Zn binding site [ion binding]; other site 290402001866 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 290402001867 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 290402001868 substrate binding site [chemical binding]; other site 290402001869 hexamer interface [polypeptide binding]; other site 290402001870 metal binding site [ion binding]; metal-binding site 290402001871 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402001872 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 290402001873 tetramer interface [polypeptide binding]; other site 290402001874 active site 290402001875 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 290402001876 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 290402001877 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 290402001878 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 290402001879 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 290402001880 TPP-binding site [chemical binding]; other site 290402001881 dimer interface [polypeptide binding]; other site 290402001882 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 290402001883 PYR/PP interface [polypeptide binding]; other site 290402001884 dimer interface [polypeptide binding]; other site 290402001885 TPP binding site [chemical binding]; other site 290402001886 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290402001887 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 290402001888 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402001889 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402001890 active site 290402001891 phosphorylation site [posttranslational modification] 290402001892 intermolecular recognition site; other site 290402001893 dimerization interface [polypeptide binding]; other site 290402001894 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 290402001895 DNA binding site [nucleotide binding] 290402001896 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402001897 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 290402001898 dimerization interface [polypeptide binding]; other site 290402001899 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 290402001900 dimer interface [polypeptide binding]; other site 290402001901 phosphorylation site [posttranslational modification] 290402001902 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402001903 ATP binding site [chemical binding]; other site 290402001904 Mg2+ binding site [ion binding]; other site 290402001905 G-X-G motif; other site 290402001906 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290402001907 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 290402001908 Response regulator receiver domain; Region: Response_reg; pfam00072 290402001909 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402001910 active site 290402001911 phosphorylation site [posttranslational modification] 290402001912 intermolecular recognition site; other site 290402001913 dimerization interface [polypeptide binding]; other site 290402001914 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 290402001915 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 290402001916 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 290402001917 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290402001918 Walker A motif; other site 290402001919 ATP binding site [chemical binding]; other site 290402001920 Walker B motif; other site 290402001921 arginine finger; other site 290402001922 PRD domain; Region: PRD; pfam00874 290402001923 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 290402001924 active pocket/dimerization site; other site 290402001925 active site 290402001926 phosphorylation site [posttranslational modification] 290402001927 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 290402001928 active site 290402001929 phosphorylation site [posttranslational modification] 290402001930 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 290402001931 active site 290402001932 phosphorylation site [posttranslational modification] 290402001933 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 290402001934 active site 290402001935 P-loop; other site 290402001936 phosphorylation site [posttranslational modification] 290402001937 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 290402001938 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 290402001939 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 290402001940 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 290402001941 putative NAD(P) binding site [chemical binding]; other site 290402001942 catalytic Zn binding site [ion binding]; other site 290402001943 transketolase; Reviewed; Region: PRK05899 290402001944 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 290402001945 TPP-binding site [chemical binding]; other site 290402001946 dimer interface [polypeptide binding]; other site 290402001947 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 290402001948 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 290402001949 PYR/PP interface [polypeptide binding]; other site 290402001950 dimer interface [polypeptide binding]; other site 290402001951 TPP binding site [chemical binding]; other site 290402001952 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290402001953 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 290402001954 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 290402001955 substrate binding site [chemical binding]; other site 290402001956 hexamer interface [polypeptide binding]; other site 290402001957 metal binding site [ion binding]; metal-binding site 290402001958 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 290402001959 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 290402001960 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 290402001961 intersubunit interface [polypeptide binding]; other site 290402001962 active site 290402001963 Zn2+ binding site [ion binding]; other site 290402001964 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 290402001965 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 290402001966 active site 290402001967 substrate binding site [chemical binding]; other site 290402001968 metal binding site [ion binding]; metal-binding site 290402001969 endonuclease IV; Provisional; Region: PRK01060 290402001970 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 290402001971 AP (apurinic/apyrimidinic) site pocket; other site 290402001972 DNA interaction; other site 290402001973 Metal-binding active site; metal-binding site 290402001974 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 290402001975 active site 290402001976 Carbon starvation protein CstA; Region: CstA; pfam02554 290402001977 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 290402001978 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 290402001979 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 290402001980 Histidine kinase; Region: His_kinase; pfam06580 290402001981 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402001982 ATP binding site [chemical binding]; other site 290402001983 Mg2+ binding site [ion binding]; other site 290402001984 G-X-G motif; other site 290402001985 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 290402001986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402001987 active site 290402001988 phosphorylation site [posttranslational modification] 290402001989 intermolecular recognition site; other site 290402001990 dimerization interface [polypeptide binding]; other site 290402001991 LytTr DNA-binding domain; Region: LytTR; smart00850 290402001992 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 290402001993 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 290402001994 DNA binding residues [nucleotide binding] 290402001995 putative dimer interface [polypeptide binding]; other site 290402001996 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 290402001997 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 290402001998 active site 290402001999 catalytic tetrad [active] 290402002000 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 290402002001 Protein of unknown function DUF111; Region: DUF111; cl03398 290402002002 hypothetical protein; Provisional; Region: PRK04194 290402002003 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 290402002004 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 290402002005 Ligand Binding Site [chemical binding]; other site 290402002006 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 290402002007 AIR carboxylase; Region: AIRC; smart01001 290402002008 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 290402002009 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 290402002010 active site 290402002011 FMN binding site [chemical binding]; other site 290402002012 substrate binding site [chemical binding]; other site 290402002013 homotetramer interface [polypeptide binding]; other site 290402002014 catalytic residue [active] 290402002015 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 290402002016 AAA ATPase domain; Region: AAA_16; pfam13191 290402002017 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 290402002018 hypothetical protein; Provisional; Region: PRK05325 290402002019 SpoVR like protein; Region: SpoVR; pfam04293 290402002020 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 290402002021 Rubrerythrin [Energy production and conversion]; Region: COG1592 290402002022 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 290402002023 binuclear metal center [ion binding]; other site 290402002024 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 290402002025 iron binding site [ion binding]; other site 290402002026 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 290402002027 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 290402002028 putative lipid kinase; Reviewed; Region: PRK13059 290402002029 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 290402002030 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 290402002031 hypothetical protein; Provisional; Region: PRK00955 290402002032 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 290402002033 PRC-barrel domain; Region: PRC; pfam05239 290402002034 MgtE intracellular N domain; Region: MgtE_N; smart00924 290402002035 FOG: CBS domain [General function prediction only]; Region: COG0517 290402002036 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 290402002037 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 290402002038 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 290402002039 dimer interface [polypeptide binding]; other site 290402002040 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402002041 catalytic residue [active] 290402002042 serine O-acetyltransferase; Region: cysE; TIGR01172 290402002043 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 290402002044 trimer interface [polypeptide binding]; other site 290402002045 active site 290402002046 substrate binding site [chemical binding]; other site 290402002047 CoA binding site [chemical binding]; other site 290402002048 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 290402002049 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 290402002050 putative acyl-acceptor binding pocket; other site 290402002051 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 290402002052 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 290402002053 minor groove reading motif; other site 290402002054 helix-hairpin-helix signature motif; other site 290402002055 substrate binding pocket [chemical binding]; other site 290402002056 active site 290402002057 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 290402002058 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 290402002059 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 290402002060 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290402002061 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 290402002062 metal binding site 2 [ion binding]; metal-binding site 290402002063 putative DNA binding helix; other site 290402002064 metal binding site 1 [ion binding]; metal-binding site 290402002065 dimer interface [polypeptide binding]; other site 290402002066 structural Zn2+ binding site [ion binding]; other site 290402002067 Predicted membrane protein [Function unknown]; Region: COG1971 290402002068 Domain of unknown function DUF; Region: DUF204; pfam02659 290402002069 6-phosphofructokinase; Provisional; Region: PRK14072 290402002070 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 290402002071 active site 290402002072 ADP/pyrophosphate binding site [chemical binding]; other site 290402002073 dimerization interface [polypeptide binding]; other site 290402002074 allosteric effector site; other site 290402002075 fructose-1,6-bisphosphate binding site; other site 290402002076 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 290402002077 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 290402002078 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290402002079 catalytic residue [active] 290402002080 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402002081 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402002082 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 290402002083 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402002084 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402002085 ABC transporter; Region: ABC_tran_2; pfam12848 290402002086 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402002087 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402002088 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402002089 active site 290402002090 phosphorylation site [posttranslational modification] 290402002091 intermolecular recognition site; other site 290402002092 dimerization interface [polypeptide binding]; other site 290402002093 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 290402002094 DNA binding site [nucleotide binding] 290402002095 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 290402002096 dimerization interface [polypeptide binding]; other site 290402002097 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402002098 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 290402002099 dimer interface [polypeptide binding]; other site 290402002100 phosphorylation site [posttranslational modification] 290402002101 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402002102 ATP binding site [chemical binding]; other site 290402002103 Mg2+ binding site [ion binding]; other site 290402002104 G-X-G motif; other site 290402002105 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 290402002106 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 290402002107 active site 290402002108 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 290402002109 VanW like protein; Region: VanW; pfam04294 290402002110 G5 domain; Region: G5; pfam07501 290402002111 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 290402002112 EDD domain protein, DegV family; Region: DegV; TIGR00762 290402002113 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 290402002114 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 290402002115 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 290402002116 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 290402002117 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 290402002118 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 290402002119 Predicted transcriptional regulator [Transcription]; Region: COG3388 290402002120 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 290402002121 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 290402002122 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 290402002123 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 290402002124 Phosphoglycerate kinase; Region: PGK; pfam00162 290402002125 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 290402002126 substrate binding site [chemical binding]; other site 290402002127 hinge regions; other site 290402002128 ADP binding site [chemical binding]; other site 290402002129 catalytic site [active] 290402002130 triosephosphate isomerase; Provisional; Region: PRK14567 290402002131 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 290402002132 substrate binding site [chemical binding]; other site 290402002133 dimer interface [polypeptide binding]; other site 290402002134 catalytic triad [active] 290402002135 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 290402002136 phosphoglyceromutase; Provisional; Region: PRK05434 290402002137 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 290402002138 active site 290402002139 ATP binding site [chemical binding]; other site 290402002140 substrate binding site [chemical binding]; other site 290402002141 enolase; Provisional; Region: eno; PRK00077 290402002142 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 290402002143 dimer interface [polypeptide binding]; other site 290402002144 metal binding site [ion binding]; metal-binding site 290402002145 substrate binding pocket [chemical binding]; other site 290402002146 Preprotein translocase SecG subunit; Region: SecG; pfam03840 290402002147 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 290402002148 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 290402002149 substrate binding pocket [chemical binding]; other site 290402002150 membrane-bound complex binding site; other site 290402002151 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290402002152 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 290402002153 dimer interface [polypeptide binding]; other site 290402002154 conserved gate region; other site 290402002155 putative PBP binding loops; other site 290402002156 ABC-ATPase subunit interface; other site 290402002157 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290402002158 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290402002159 Walker A/P-loop; other site 290402002160 ATP binding site [chemical binding]; other site 290402002161 Q-loop/lid; other site 290402002162 ABC transporter signature motif; other site 290402002163 Walker B; other site 290402002164 D-loop; other site 290402002165 H-loop/switch region; other site 290402002166 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 290402002167 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 290402002168 metal-binding site [ion binding] 290402002169 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290402002170 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 290402002171 motif II; other site 290402002172 Family description; Region: DsbD_2; pfam13386 290402002173 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 290402002174 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 290402002175 homodimer interface [polypeptide binding]; other site 290402002176 substrate-cofactor binding pocket; other site 290402002177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402002178 catalytic residue [active] 290402002179 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290402002180 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290402002181 Walker A/P-loop; other site 290402002182 ATP binding site [chemical binding]; other site 290402002183 Q-loop/lid; other site 290402002184 ABC transporter signature motif; other site 290402002185 Walker B; other site 290402002186 D-loop; other site 290402002187 H-loop/switch region; other site 290402002188 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 290402002189 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 290402002190 Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfE_like; cd01972 290402002191 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 290402002192 Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfN_like; cd01971 290402002193 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 290402002194 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290402002195 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 290402002196 dimer interface [polypeptide binding]; other site 290402002197 conserved gate region; other site 290402002198 putative PBP binding loops; other site 290402002199 ABC-ATPase subunit interface; other site 290402002200 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290402002201 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 290402002202 dimer interface [polypeptide binding]; other site 290402002203 conserved gate region; other site 290402002204 putative PBP binding loops; other site 290402002205 ABC-ATPase subunit interface; other site 290402002206 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 290402002207 NMT1/THI5 like; Region: NMT1; pfam09084 290402002208 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290402002209 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 290402002210 dimer interface [polypeptide binding]; other site 290402002211 conserved gate region; other site 290402002212 putative PBP binding loops; other site 290402002213 ABC-ATPase subunit interface; other site 290402002214 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290402002215 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 290402002216 dimer interface [polypeptide binding]; other site 290402002217 conserved gate region; other site 290402002218 putative PBP binding loops; other site 290402002219 ABC-ATPase subunit interface; other site 290402002220 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 290402002221 Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfE_like; cd01972 290402002222 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 290402002223 Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfN_like; cd01971 290402002224 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 290402002225 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 290402002226 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 290402002227 homodimer interface [polypeptide binding]; other site 290402002228 substrate-cofactor binding pocket; other site 290402002229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402002230 catalytic residue [active] 290402002231 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 290402002232 nitrogenase iron protein; Region: nifH; TIGR01287 290402002233 Nucleotide-binding sites [chemical binding]; other site 290402002234 Walker A motif; other site 290402002235 Switch I region of nucleotide binding site; other site 290402002236 Fe4S4 binding sites [ion binding]; other site 290402002237 Switch II region of nucleotide binding site; other site 290402002238 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290402002239 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 290402002240 Walker A/P-loop; other site 290402002241 ATP binding site [chemical binding]; other site 290402002242 Q-loop/lid; other site 290402002243 ABC transporter signature motif; other site 290402002244 Walker B; other site 290402002245 D-loop; other site 290402002246 H-loop/switch region; other site 290402002247 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 290402002248 dimer interface [polypeptide binding]; other site 290402002249 conserved gate region; other site 290402002250 ABC-ATPase subunit interface; other site 290402002251 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 290402002252 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 290402002253 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 290402002254 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 290402002255 Radical SAM superfamily; Region: Radical_SAM; pfam04055 290402002256 FeS/SAM binding site; other site 290402002257 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 290402002258 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 290402002259 homodimer interface [polypeptide binding]; other site 290402002260 substrate-cofactor binding pocket; other site 290402002261 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402002262 catalytic residue [active] 290402002263 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 290402002264 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 290402002265 dimer interface [polypeptide binding]; other site 290402002266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402002267 catalytic residue [active] 290402002268 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 290402002269 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 290402002270 Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfN_like; cd01971 290402002271 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 290402002272 ribonuclease R; Region: RNase_R; TIGR02063 290402002273 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 290402002274 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 290402002275 RNB domain; Region: RNB; pfam00773 290402002276 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 290402002277 RNA binding site [nucleotide binding]; other site 290402002278 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 290402002279 SmpB-tmRNA interface; other site 290402002280 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 290402002281 active site 290402002282 metal binding site [ion binding]; metal-binding site 290402002283 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 290402002284 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 290402002285 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 290402002286 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 290402002287 active site 290402002288 metal binding site [ion binding]; metal-binding site 290402002289 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 290402002290 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 290402002291 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 290402002292 Walker A/P-loop; other site 290402002293 ATP binding site [chemical binding]; other site 290402002294 Q-loop/lid; other site 290402002295 ABC transporter signature motif; other site 290402002296 Walker B; other site 290402002297 D-loop; other site 290402002298 H-loop/switch region; other site 290402002299 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 290402002300 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 290402002301 dimer interface [polypeptide binding]; other site 290402002302 conserved gate region; other site 290402002303 ABC-ATPase subunit interface; other site 290402002304 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 290402002305 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 290402002306 Uncharacterized conserved protein [Function unknown]; Region: COG3339 290402002307 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 290402002308 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 290402002309 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 290402002310 RNA/DNA hybrid binding site [nucleotide binding]; other site 290402002311 active site 290402002312 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 290402002313 non-specific DNA binding site [nucleotide binding]; other site 290402002314 salt bridge; other site 290402002315 sequence-specific DNA binding site [nucleotide binding]; other site 290402002316 Tetratricopeptide repeat; Region: TPR_12; pfam13424 290402002317 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 290402002318 binding surface 290402002319 TPR motif; other site 290402002320 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 290402002321 non-specific DNA binding site [nucleotide binding]; other site 290402002322 salt bridge; other site 290402002323 sequence-specific DNA binding site [nucleotide binding]; other site 290402002324 Tetratricopeptide repeat; Region: TPR_12; pfam13424 290402002325 FOG: CBS domain [General function prediction only]; Region: COG0517 290402002326 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 290402002327 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 290402002328 Clp amino terminal domain; Region: Clp_N; pfam02861 290402002329 Clp amino terminal domain; Region: Clp_N; pfam02861 290402002330 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 290402002331 Walker A motif; other site 290402002332 ATP binding site [chemical binding]; other site 290402002333 Walker B motif; other site 290402002334 arginine finger; other site 290402002335 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 290402002336 Walker A motif; other site 290402002337 ATP binding site [chemical binding]; other site 290402002338 Walker B motif; other site 290402002339 arginine finger; other site 290402002340 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 290402002341 Predicted membrane protein [Function unknown]; Region: COG4684 290402002342 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 290402002343 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 290402002344 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 290402002345 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 290402002346 ATP binding site [chemical binding]; other site 290402002347 substrate interface [chemical binding]; other site 290402002348 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 290402002349 thiamine phosphate binding site [chemical binding]; other site 290402002350 active site 290402002351 pyrophosphate binding site [ion binding]; other site 290402002352 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 290402002353 Ligand Binding Site [chemical binding]; other site 290402002354 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 290402002355 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402002356 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402002357 metal binding site [ion binding]; metal-binding site 290402002358 active site 290402002359 I-site; other site 290402002360 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 290402002361 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 290402002362 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 290402002363 NodB motif; other site 290402002364 active site 290402002365 catalytic site [active] 290402002366 Zn binding site [ion binding]; other site 290402002367 Archaeal ATPase; Region: Arch_ATPase; pfam01637 290402002368 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402002369 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402002370 metal binding site [ion binding]; metal-binding site 290402002371 active site 290402002372 I-site; other site 290402002373 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 290402002374 trimer interface [polypeptide binding]; other site 290402002375 active site 290402002376 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 290402002377 S-adenosylmethionine binding site [chemical binding]; other site 290402002378 Accessory gene regulator B; Region: AgrB; pfam04647 290402002379 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 290402002380 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402002381 ATP binding site [chemical binding]; other site 290402002382 Mg2+ binding site [ion binding]; other site 290402002383 G-X-G motif; other site 290402002384 Accessory gene regulator B; Region: AgrB; pfam04647 290402002385 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 290402002386 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 290402002387 FAD binding pocket [chemical binding]; other site 290402002388 FAD binding motif [chemical binding]; other site 290402002389 phosphate binding motif [ion binding]; other site 290402002390 beta-alpha-beta structure motif; other site 290402002391 NAD binding pocket [chemical binding]; other site 290402002392 Iron coordination center [ion binding]; other site 290402002393 putative oxidoreductase; Provisional; Region: PRK12831 290402002394 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290402002395 Predicted membrane protein [Function unknown]; Region: COG2364 290402002396 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 290402002397 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 290402002398 active site 290402002399 Ca binding site [ion binding]; other site 290402002400 catalytic site [active] 290402002401 Aamy_C domain; Region: Aamy_C; smart00632 290402002402 Carbohydrate binding domain; Region: CBM_25; smart01066 290402002403 Carbohydrate binding domain; Region: CBM_25; smart01066 290402002404 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402002405 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402002406 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 290402002407 dimerization interface [polypeptide binding]; other site 290402002408 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402002409 dimer interface [polypeptide binding]; other site 290402002410 putative CheW interface [polypeptide binding]; other site 290402002411 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 290402002412 Histidine kinase-like ATPases; This family includes several ATP-binding 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 290402002413 Cache domain; Region: Cache_1; pfam02743 290402002414 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 290402002415 dimerization interface [polypeptide binding]; other site 290402002416 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 290402002417 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402002418 dimer interface [polypeptide binding]; other site 290402002419 putative CheW interface [polypeptide binding]; other site 290402002420 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 290402002421 anti sigma factor interaction site; other site 290402002422 regulatory phosphorylation site [posttranslational modification]; other site 290402002423 PAS domain; Region: PAS_9; pfam13426 290402002424 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 290402002425 putative active site [active] 290402002426 heme pocket [chemical binding]; other site 290402002427 PAS fold; Region: PAS_4; pfam08448 290402002428 PAS domain S-box; Region: sensory_box; TIGR00229 290402002429 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 290402002430 putative active site [active] 290402002431 heme pocket [chemical binding]; other site 290402002432 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 290402002433 HNH endonuclease; Region: HNH_2; pfam13391 290402002434 Transposase, Mutator family; Region: Transposase_mut; pfam00872 290402002435 MULE transposase domain; Region: MULE; pfam10551 290402002436 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 290402002437 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 290402002438 NAD(P) binding site [chemical binding]; other site 290402002439 catalytic residues [active] 290402002440 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290402002441 acyl-activating enzyme (AAE) consensus motif; other site 290402002442 active site 290402002443 AMP binding site [chemical binding]; other site 290402002444 CoA binding site [chemical binding]; other site 290402002445 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 290402002446 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402002447 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402002448 putative substrate translocation pore; other site 290402002449 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402002450 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290402002451 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402002452 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402002453 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402002454 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 290402002455 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402002456 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402002457 ABC transporter; Region: ABC_tran_2; pfam12848 290402002458 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402002459 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 290402002460 S-adenosylmethionine binding site [chemical binding]; other site 290402002461 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 290402002462 Phosphopantetheine attachment site; Region: PP-binding; cl09936 290402002463 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 290402002464 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 290402002465 FeS/SAM binding site; other site 290402002466 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 290402002467 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290402002468 acyl-activating enzyme (AAE) consensus motif; other site 290402002469 active site 290402002470 AMP binding site [chemical binding]; other site 290402002471 CoA binding site [chemical binding]; other site 290402002472 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 290402002473 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 290402002474 NAD(P) binding site [chemical binding]; other site 290402002475 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 290402002476 The adenylation domain of nonribosomal peptide synthetases (NRPS) similar to mycosubtilin synthase subunit A (MycA); Region: A_NRPS_MycA_like; cd05908 290402002477 acyl-activating enzyme (AAE) consensus motif; other site 290402002478 putative AMP binding site [chemical binding]; other site 290402002479 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 290402002480 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 290402002481 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 290402002482 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 290402002483 Radical SAM superfamily; Region: Radical_SAM; pfam04055 290402002484 FeS/SAM binding site; other site 290402002485 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 290402002486 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 290402002487 active site 290402002488 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 290402002489 active site 2 [active] 290402002490 active site 1 [active] 290402002491 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 290402002492 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 290402002493 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 290402002494 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 290402002495 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 290402002496 putative active site [active] 290402002497 putative NTP binding site [chemical binding]; other site 290402002498 putative nucleic acid binding site [nucleotide binding]; other site 290402002499 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 290402002500 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 290402002501 active site 290402002502 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 290402002503 RNAase interaction site [polypeptide binding]; other site 290402002504 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402002505 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402002506 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 290402002507 putative active site [active] 290402002508 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 290402002509 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402002510 active site turn [active] 290402002511 phosphorylation site [posttranslational modification] 290402002512 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl17885 290402002513 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 290402002514 beta-galactosidase; Region: BGL; TIGR03356 290402002515 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 290402002516 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 290402002517 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 290402002518 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290402002519 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 290402002520 non-specific DNA binding site [nucleotide binding]; other site 290402002521 salt bridge; other site 290402002522 sequence-specific DNA binding site [nucleotide binding]; other site 290402002523 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 290402002524 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 290402002525 dimer interface [polypeptide binding]; other site 290402002526 active site 290402002527 glycine loop; other site 290402002528 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402002529 MarR family; Region: MarR_2; pfam12802 290402002530 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402002531 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402002532 putative substrate translocation pore; other site 290402002533 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 290402002534 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 290402002535 B12 binding site [chemical binding]; other site 290402002536 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 290402002537 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 290402002538 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402002539 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 290402002540 dimer interface [polypeptide binding]; other site 290402002541 phosphorylation site [posttranslational modification] 290402002542 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402002543 ATP binding site [chemical binding]; other site 290402002544 Mg2+ binding site [ion binding]; other site 290402002545 G-X-G motif; other site 290402002546 Response regulator receiver domain; Region: Response_reg; pfam00072 290402002547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402002548 active site 290402002549 phosphorylation site [posttranslational modification] 290402002550 intermolecular recognition site; other site 290402002551 dimerization interface [polypeptide binding]; other site 290402002552 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 290402002553 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290402002554 active pocket/dimerization site; other site 290402002555 active site 290402002556 phosphorylation site [posttranslational modification] 290402002557 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 290402002558 active site 290402002559 phosphorylation site [posttranslational modification] 290402002560 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 290402002561 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 290402002562 Domain of unknown function (DUF956); Region: DUF956; pfam06115 290402002563 4Fe-4S binding domain; Region: Fer4_6; pfam12837 290402002564 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 290402002565 4Fe-4S binding domain; Region: Fer4; pfam00037 290402002566 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 290402002567 putative FMN binding site [chemical binding]; other site 290402002568 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 290402002569 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402002570 putative substrate translocation pore; other site 290402002571 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402002572 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 290402002573 non-specific DNA binding site [nucleotide binding]; other site 290402002574 salt bridge; other site 290402002575 sequence-specific DNA binding site [nucleotide binding]; other site 290402002576 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402002577 MarR family; Region: MarR_2; pfam12802 290402002578 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 290402002579 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402002580 Coenzyme A binding pocket [chemical binding]; other site 290402002581 putative transposase OrfB; Reviewed; Region: PHA02517 290402002582 HTH-like domain; Region: HTH_21; pfam13276 290402002583 Integrase core domain; Region: rve; pfam00665 290402002584 Integrase core domain; Region: rve_2; pfam13333 290402002585 Transposase; Region: HTH_Tnp_1; pfam01527 290402002586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 290402002587 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 290402002588 Helix-turn-helix domain; Region: HTH_28; pfam13518 290402002589 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 290402002590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402002591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402002592 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 290402002593 dimerization interface [polypeptide binding]; other site 290402002594 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402002595 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402002596 putative substrate translocation pore; other site 290402002597 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290402002598 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290402002599 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290402002600 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 290402002601 putative FMN binding site [chemical binding]; other site 290402002602 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 290402002603 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290402002604 DNA binding residues [nucleotide binding] 290402002605 putative dimer interface [polypeptide binding]; other site 290402002606 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 290402002607 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290402002608 NAD binding site [chemical binding]; other site 290402002609 catalytic residues [active] 290402002610 Methyltransferase domain; Region: Methyltransf_31; pfam13847 290402002611 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 290402002612 S-adenosylmethionine binding site [chemical binding]; other site 290402002613 Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like; Region: ALDH_StaphAldA1; cd07117 290402002614 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290402002615 NAD(P) binding site [chemical binding]; other site 290402002616 catalytic residues [active] 290402002617 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 290402002618 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402002619 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402002620 DNA binding site [nucleotide binding] 290402002621 domain linker motif; other site 290402002622 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 290402002623 dimerization interface [polypeptide binding]; other site 290402002624 ligand binding site [chemical binding]; other site 290402002625 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290402002626 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 290402002627 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290402002628 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 290402002629 dimer interface [polypeptide binding]; other site 290402002630 conserved gate region; other site 290402002631 putative PBP binding loops; other site 290402002632 ABC-ATPase subunit interface; other site 290402002633 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290402002634 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 290402002635 dimer interface [polypeptide binding]; other site 290402002636 conserved gate region; other site 290402002637 putative PBP binding loops; other site 290402002638 ABC-ATPase subunit interface; other site 290402002639 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 290402002640 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 290402002641 Ca binding site [ion binding]; other site 290402002642 active site 290402002643 catalytic site [active] 290402002644 Peptidase family U32; Region: Peptidase_U32; pfam01136 290402002645 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402002646 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402002647 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402002648 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402002649 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402002650 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402002651 QueT transporter; Region: QueT; pfam06177 290402002652 PAS domain; Region: PAS_9; pfam13426 290402002653 PAS fold; Region: PAS; pfam00989 290402002654 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 290402002655 putative active site [active] 290402002656 heme pocket [chemical binding]; other site 290402002657 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402002658 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402002659 metal binding site [ion binding]; metal-binding site 290402002660 active site 290402002661 I-site; other site 290402002662 conserved hypothetical integral membrane protein; Region: TIGR03766 290402002663 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290402002664 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290402002665 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290402002666 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 290402002667 intersubunit interface [polypeptide binding]; other site 290402002668 active site 290402002669 catalytic residue [active] 290402002670 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402002671 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402002672 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 290402002673 putative active site [active] 290402002674 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 290402002675 transcription elongation factor GreA; Region: greA; TIGR01462 290402002676 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 290402002677 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402002678 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 290402002679 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402002680 active site turn [active] 290402002681 phosphorylation site [posttranslational modification] 290402002682 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 290402002683 HPr interaction site; other site 290402002684 glycerol kinase (GK) interaction site [polypeptide binding]; other site 290402002685 active site 290402002686 phosphorylation site [posttranslational modification] 290402002687 transcriptional antiterminator BglG; Provisional; Region: PRK09772 290402002688 CAT RNA binding domain; Region: CAT_RBD; cl03904 290402002689 PRD domain; Region: PRD; pfam00874 290402002690 PRD domain; Region: PRD; pfam00874 290402002691 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 290402002692 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 290402002693 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 290402002694 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 290402002695 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402002696 active site 290402002697 phosphorylation site [posttranslational modification] 290402002698 intermolecular recognition site; other site 290402002699 dimerization interface [polypeptide binding]; other site 290402002700 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 290402002701 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 290402002702 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290402002703 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 290402002704 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 290402002705 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290402002706 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 290402002707 active site 290402002708 P-loop; other site 290402002709 phosphorylation site [posttranslational modification] 290402002710 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 290402002711 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290402002712 catalytic residue [active] 290402002713 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 290402002714 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 290402002715 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402002716 active site 290402002717 dimer interface [polypeptide binding]; other site 290402002718 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290402002719 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290402002720 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290402002721 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402002722 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402002723 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 290402002724 putative active site [active] 290402002725 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 290402002726 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290402002727 active site 290402002728 catalytic tetrad [active] 290402002729 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 290402002730 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290402002731 catalytic triad [active] 290402002732 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 290402002733 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 290402002734 homodimer interface [polypeptide binding]; other site 290402002735 substrate-cofactor binding pocket; other site 290402002736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402002737 catalytic residue [active] 290402002738 Response regulator receiver domain; Region: Response_reg; pfam00072 290402002739 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402002740 active site 290402002741 phosphorylation site [posttranslational modification] 290402002742 intermolecular recognition site; other site 290402002743 dimerization interface [polypeptide binding]; other site 290402002744 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402002745 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402002746 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402002747 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 290402002748 Histidine kinase; Region: His_kinase; pfam06580 290402002749 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402002750 ATP binding site [chemical binding]; other site 290402002751 Mg2+ binding site [ion binding]; other site 290402002752 G-X-G motif; other site 290402002753 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290402002754 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290402002755 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 290402002756 dimer interface [polypeptide binding]; other site 290402002757 conserved gate region; other site 290402002758 putative PBP binding loops; other site 290402002759 ABC-ATPase subunit interface; other site 290402002760 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290402002761 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 290402002762 dimer interface [polypeptide binding]; other site 290402002763 conserved gate region; other site 290402002764 putative PBP binding loops; other site 290402002765 ABC-ATPase subunit interface; other site 290402002766 putative alpha-glucosidase; Provisional; Region: PRK10658 290402002767 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 290402002768 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 290402002769 active site 290402002770 homotrimer interface [polypeptide binding]; other site 290402002771 catalytic site [active] 290402002772 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 290402002773 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 290402002774 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 290402002775 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 290402002776 active site 290402002777 Zn binding site [ion binding]; other site 290402002778 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402002779 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 290402002780 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 290402002781 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 290402002782 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290402002783 catalytic residues [active] 290402002784 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 290402002785 catalytic residues [active] 290402002786 dimer interface [polypeptide binding]; other site 290402002787 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 290402002788 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290402002789 MarR family; Region: MarR; pfam01047 290402002790 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290402002791 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 290402002792 ligand binding site [chemical binding]; other site 290402002793 flexible hinge region; other site 290402002794 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 290402002795 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290402002796 ligand binding site [chemical binding]; other site 290402002797 flexible hinge region; other site 290402002798 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 290402002799 putative switch regulator; other site 290402002800 non-specific DNA interactions [nucleotide binding]; other site 290402002801 DNA binding site [nucleotide binding] 290402002802 sequence specific DNA binding site [nucleotide binding]; other site 290402002803 putative cAMP binding site [chemical binding]; other site 290402002804 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 290402002805 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 290402002806 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 290402002807 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 290402002808 FAD binding pocket [chemical binding]; other site 290402002809 FAD binding motif [chemical binding]; other site 290402002810 phosphate binding motif [ion binding]; other site 290402002811 beta-alpha-beta structure motif; other site 290402002812 NAD binding pocket [chemical binding]; other site 290402002813 Iron coordination center [ion binding]; other site 290402002814 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 290402002815 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290402002816 4Fe-4S binding domain; Region: Fer4; pfam00037 290402002817 hybrid cluster protein; Provisional; Region: PRK05290 290402002818 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 290402002819 ACS interaction site; other site 290402002820 CODH interaction site; other site 290402002821 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 290402002822 hybrid metal cluster; other site 290402002823 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 290402002824 lysine transporter; Provisional; Region: PRK10836 290402002825 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 290402002826 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290402002827 Walker A/P-loop; other site 290402002828 ATP binding site [chemical binding]; other site 290402002829 Q-loop/lid; other site 290402002830 ABC transporter signature motif; other site 290402002831 Walker B; other site 290402002832 D-loop; other site 290402002833 H-loop/switch region; other site 290402002834 Predicted transcriptional regulators [Transcription]; Region: COG1725 290402002835 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402002836 DNA-binding site [nucleotide binding]; DNA binding site 290402002837 Quinolinate synthetase A protein; Region: NadA; pfam02445 290402002838 L-aspartate oxidase; Provisional; Region: PRK06175 290402002839 FAD binding domain; Region: FAD_binding_2; pfam00890 290402002840 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 290402002841 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 290402002842 dimerization interface [polypeptide binding]; other site 290402002843 active site 290402002844 4Fe-4S binding domain; Region: Fer4_6; pfam12837 290402002845 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290402002846 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 290402002847 Ligand Binding Site [chemical binding]; other site 290402002848 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 290402002849 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 290402002850 active site 290402002851 HIGH motif; other site 290402002852 dimer interface [polypeptide binding]; other site 290402002853 KMSKS motif; other site 290402002854 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 290402002855 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 290402002856 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 290402002857 DNA polymerase I; Provisional; Region: PRK05755 290402002858 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 290402002859 active site 290402002860 metal binding site 1 [ion binding]; metal-binding site 290402002861 putative 5' ssDNA interaction site; other site 290402002862 metal binding site 3; metal-binding site 290402002863 metal binding site 2 [ion binding]; metal-binding site 290402002864 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 290402002865 putative DNA binding site [nucleotide binding]; other site 290402002866 putative metal binding site [ion binding]; other site 290402002867 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 290402002868 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 290402002869 active site 290402002870 DNA binding site [nucleotide binding] 290402002871 catalytic site [active] 290402002872 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 290402002873 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 290402002874 CoA-binding site [chemical binding]; other site 290402002875 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 290402002876 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 290402002877 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290402002878 catalytic residue [active] 290402002879 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402002880 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402002881 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 290402002882 dimerization interface [polypeptide binding]; other site 290402002883 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402002884 dimer interface [polypeptide binding]; other site 290402002885 putative CheW interface [polypeptide binding]; other site 290402002886 Predicted membrane protein [Function unknown]; Region: COG1511 290402002887 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 290402002888 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 290402002889 Predicted membrane protein [Function unknown]; Region: COG1511 290402002890 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 290402002891 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 290402002892 PAS domain; Region: PAS_8; pfam13188 290402002893 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 290402002894 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 290402002895 dimer interface [polypeptide binding]; other site 290402002896 phosphorylation site [posttranslational modification] 290402002897 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402002898 ATP binding site [chemical binding]; other site 290402002899 Mg2+ binding site [ion binding]; other site 290402002900 G-X-G motif; other site 290402002901 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402002902 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 290402002903 dimer interface [polypeptide binding]; other site 290402002904 phosphorylation site [posttranslational modification] 290402002905 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402002906 ATP binding site [chemical binding]; other site 290402002907 Mg2+ binding site [ion binding]; other site 290402002908 G-X-G motif; other site 290402002909 TspO/MBR family; Region: TspO_MBR; pfam03073 290402002910 AAA domain; Region: AAA_32; pfam13654 290402002911 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 290402002912 Winged helix-turn helix; Region: HTH_29; pfam13551 290402002913 Homeodomain-like domain; Region: HTH_23; pfam13384 290402002914 Homeodomain-like domain; Region: HTH_32; pfam13565 290402002915 Winged helix-turn helix; Region: HTH_33; pfam13592 290402002916 DDE superfamily endonuclease; Region: DDE_3; pfam13358 290402002917 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 290402002918 anti sigma factor interaction site; other site 290402002919 regulatory phosphorylation site [posttranslational modification]; other site 290402002920 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 290402002921 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402002922 ATP binding site [chemical binding]; other site 290402002923 Mg2+ binding site [ion binding]; other site 290402002924 G-X-G motif; other site 290402002925 sporulation sigma factor SigF; Validated; Region: PRK05572 290402002926 Domain of unknown function, E. rectale Gene description (DUF3881); Region: DUF3881; pfam12997 290402002927 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402002928 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 290402002929 DNA binding residues [nucleotide binding] 290402002930 SpoVA protein; Region: SpoVA; cl04298 290402002931 stage V sporulation protein AD; Validated; Region: PRK08304 290402002932 stage V sporulation protein AD; Provisional; Region: PRK12404 290402002933 SpoVA protein; Region: SpoVA; cl04298 290402002934 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 290402002935 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 290402002936 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290402002937 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 290402002938 Competence protein; Region: Competence; pfam03772 290402002939 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 290402002940 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 290402002941 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 290402002942 germination protease; Provisional; Region: PRK12362 290402002943 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 290402002944 stage II sporulation protein P; Region: spore_II_P; TIGR02867 290402002945 GTP-binding protein LepA; Provisional; Region: PRK05433 290402002946 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 290402002947 G1 box; other site 290402002948 putative GEF interaction site [polypeptide binding]; other site 290402002949 GTP/Mg2+ binding site [chemical binding]; other site 290402002950 Switch I region; other site 290402002951 G2 box; other site 290402002952 G3 box; other site 290402002953 Switch II region; other site 290402002954 G4 box; other site 290402002955 G5 box; other site 290402002956 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 290402002957 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 290402002958 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 290402002959 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 290402002960 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 290402002961 FeS/SAM binding site; other site 290402002962 HemN C-terminal domain; Region: HemN_C; pfam06969 290402002963 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 290402002964 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 290402002965 GrpE; Region: GrpE; pfam01025 290402002966 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 290402002967 dimer interface [polypeptide binding]; other site 290402002968 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 290402002969 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 290402002970 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 290402002971 nucleotide binding site [chemical binding]; other site 290402002972 NEF interaction site [polypeptide binding]; other site 290402002973 SBD interface [polypeptide binding]; other site 290402002974 chaperone protein DnaJ; Provisional; Region: PRK10767 290402002975 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 290402002976 HSP70 interaction site [polypeptide binding]; other site 290402002977 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 290402002978 substrate binding site [polypeptide binding]; other site 290402002979 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 290402002980 Zn binding sites [ion binding]; other site 290402002981 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 290402002982 dimer interface [polypeptide binding]; other site 290402002983 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 290402002984 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290402002985 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290402002986 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 290402002987 S-adenosylmethionine binding site [chemical binding]; other site 290402002988 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 290402002989 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 290402002990 S-adenosylmethionine binding site [chemical binding]; other site 290402002991 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 290402002992 RNA methyltransferase, RsmE family; Region: TIGR00046 290402002993 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 290402002994 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 290402002995 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 290402002996 FeS/SAM binding site; other site 290402002997 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 290402002998 nucleotide binding site/active site [active] 290402002999 HIT family signature motif; other site 290402003000 catalytic residue [active] 290402003001 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 290402003002 Yqey-like protein; Region: YqeY; pfam09424 290402003003 YabP family; Region: YabP; cl06766 290402003004 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 290402003005 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 290402003006 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 290402003007 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 290402003008 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402003009 Zn2+ binding site [ion binding]; other site 290402003010 Mg2+ binding site [ion binding]; other site 290402003011 metal-binding heat shock protein; Provisional; Region: PRK00016 290402003012 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 290402003013 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 290402003014 active site 290402003015 GTPase Era; Reviewed; Region: era; PRK00089 290402003016 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 290402003017 G1 box; other site 290402003018 GTP/Mg2+ binding site [chemical binding]; other site 290402003019 Switch I region; other site 290402003020 G2 box; other site 290402003021 Switch II region; other site 290402003022 G3 box; other site 290402003023 G4 box; other site 290402003024 G5 box; other site 290402003025 KH domain; Region: KH_2; pfam07650 290402003026 Recombination protein O N terminal; Region: RecO_N; pfam11967 290402003027 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 290402003028 Recombination protein O C terminal; Region: RecO_C; pfam02565 290402003029 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 290402003030 HTH domain; Region: HTH_11; pfam08279 290402003031 FOG: CBS domain [General function prediction only]; Region: COG0517 290402003032 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_4; cd04617 290402003033 pyruvate phosphate dikinase; Provisional; Region: PRK09279 290402003034 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 290402003035 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290402003036 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 290402003037 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 290402003038 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 290402003039 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 290402003040 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402003041 Zn2+ binding site [ion binding]; other site 290402003042 Mg2+ binding site [ion binding]; other site 290402003043 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 290402003044 DNA primase; Validated; Region: dnaG; PRK05667 290402003045 CHC2 zinc finger; Region: zf-CHC2; pfam01807 290402003046 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 290402003047 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 290402003048 active site 290402003049 metal binding site [ion binding]; metal-binding site 290402003050 interdomain interaction site; other site 290402003051 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 290402003052 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 290402003053 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 290402003054 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 290402003055 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 290402003056 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402003057 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 290402003058 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 290402003059 DNA binding residues [nucleotide binding] 290402003060 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 290402003061 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 290402003062 S-adenosylmethionine binding site [chemical binding]; other site 290402003063 Uncharacterized conserved protein [Function unknown]; Region: COG0327 290402003064 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 290402003065 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 290402003066 active site 290402003067 catalytic triad [active] 290402003068 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 290402003069 active site 290402003070 catalytic triad [active] 290402003071 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 290402003072 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 290402003073 catalytic triad [active] 290402003074 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 290402003075 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290402003076 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290402003077 Walker A/P-loop; other site 290402003078 ATP binding site [chemical binding]; other site 290402003079 Q-loop/lid; other site 290402003080 ABC transporter signature motif; other site 290402003081 Walker B; other site 290402003082 D-loop; other site 290402003083 H-loop/switch region; other site 290402003084 TOBE domain; Region: TOBE_2; pfam08402 290402003085 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 290402003086 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402003087 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402003088 DNA binding site [nucleotide binding] 290402003089 domain linker motif; other site 290402003090 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 290402003091 dimerization interface [polypeptide binding]; other site 290402003092 ligand binding site [chemical binding]; other site 290402003093 4-alpha-glucanotransferase; Provisional; Region: PRK14508 290402003094 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 290402003095 homodimer interface [polypeptide binding]; other site 290402003096 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 290402003097 active site pocket [active] 290402003098 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 290402003099 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 290402003100 putative ligand binding site [chemical binding]; other site 290402003101 putative NAD binding site [chemical binding]; other site 290402003102 catalytic site [active] 290402003103 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 290402003104 phosphate binding site [ion binding]; other site 290402003105 DNA topoisomerase III; Provisional; Region: PRK07726 290402003106 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 290402003107 active site 290402003108 putative interdomain interaction site [polypeptide binding]; other site 290402003109 putative metal-binding site [ion binding]; other site 290402003110 putative nucleotide binding site [chemical binding]; other site 290402003111 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; cl11986 290402003112 domain I; other site 290402003113 DNA binding groove [nucleotide binding] 290402003114 phosphate binding site [ion binding]; other site 290402003115 domain II; other site 290402003116 domain III; other site 290402003117 nucleotide binding site [chemical binding]; other site 290402003118 catalytic site [active] 290402003119 domain IV; other site 290402003120 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 290402003121 short chain dehydrogenase; Provisional; Region: PRK06701 290402003122 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 290402003123 NAD binding site [chemical binding]; other site 290402003124 metal binding site [ion binding]; metal-binding site 290402003125 active site 290402003126 Domain of unknown function (DUF4261); Region: DUF4261; pfam14080 290402003127 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 290402003128 Cache domain; Region: Cache_1; pfam02743 290402003129 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402003130 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402003131 dimer interface [polypeptide binding]; other site 290402003132 putative CheW interface [polypeptide binding]; other site 290402003133 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 290402003134 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290402003135 putative active site [active] 290402003136 putative metal binding site [ion binding]; other site 290402003137 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 290402003138 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 290402003139 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 290402003140 trimer interface [polypeptide binding]; other site 290402003141 active site 290402003142 substrate binding site [chemical binding]; other site 290402003143 CoA binding site [chemical binding]; other site 290402003144 Cache domain; Region: Cache_1; pfam02743 290402003145 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 290402003146 dimerization interface [polypeptide binding]; other site 290402003147 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402003148 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402003149 dimer interface [polypeptide binding]; other site 290402003150 putative CheW interface [polypeptide binding]; other site 290402003151 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 290402003152 Na binding site [ion binding]; other site 290402003153 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 290402003154 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 290402003155 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 290402003156 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 290402003157 catalytic residues [active] 290402003158 catalytic nucleophile [active] 290402003159 Recombinase; Region: Recombinase; pfam07508 290402003160 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 290402003161 Domain of unknown function (DUF955); Region: DUF955; pfam06114 290402003162 AAA domain; Region: AAA_23; pfam13476 290402003163 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402003164 Walker A/P-loop; other site 290402003165 ATP binding site [chemical binding]; other site 290402003166 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 290402003167 active site 290402003168 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 290402003169 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 290402003170 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 290402003171 non-specific DNA binding site [nucleotide binding]; other site 290402003172 salt bridge; other site 290402003173 sequence-specific DNA binding site [nucleotide binding]; other site 290402003174 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 290402003175 non-specific DNA binding site [nucleotide binding]; other site 290402003176 salt bridge; other site 290402003177 sequence-specific DNA binding site [nucleotide binding]; other site 290402003178 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 290402003179 sequence-specific DNA binding site [nucleotide binding]; other site 290402003180 salt bridge; other site 290402003181 Helix-turn-helix domain; Region: HTH_36; pfam13730 290402003182 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 290402003183 cysteine-tRNA ligase; Region: PLN02946 290402003184 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 290402003185 active site 290402003186 DNA binding site [nucleotide binding] 290402003187 Int/Topo IB signature motif; other site 290402003188 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 290402003189 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 290402003190 Phage-related protein [Function unknown]; Region: COG4695; cl01923 290402003191 Phage portal protein; Region: Phage_portal; pfam04860 290402003192 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 290402003193 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 290402003194 Phage capsid family; Region: Phage_capsid; pfam05065 290402003195 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 290402003196 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 290402003197 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 290402003198 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 290402003199 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 290402003200 Phage-related protein [Function unknown]; Region: COG5412 290402003201 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 290402003202 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402003203 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 290402003204 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 290402003205 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 290402003206 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 290402003207 Lyc muramidase is an autolytic lysozyme (autolysin) from Clostridium acetobutylicum encoded by the lyc gene. Lyc has a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan...; Region: GH25_Lyc-like; cd06525 290402003208 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 290402003209 active site 290402003210 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 290402003211 salt bridge; other site 290402003212 non-specific DNA binding site [nucleotide binding]; other site 290402003213 sequence-specific DNA binding site [nucleotide binding]; other site 290402003214 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 290402003215 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 290402003216 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290402003217 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290402003218 Walker A/P-loop; other site 290402003219 ATP binding site [chemical binding]; other site 290402003220 Q-loop/lid; other site 290402003221 ABC transporter signature motif; other site 290402003222 Walker B; other site 290402003223 D-loop; other site 290402003224 H-loop/switch region; other site 290402003225 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290402003226 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 290402003227 LrgA family; Region: LrgA; pfam03788 290402003228 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 290402003229 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402003230 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402003231 ligand binding site [chemical binding]; other site 290402003232 calcium binding site [ion binding]; other site 290402003233 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 290402003234 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 290402003235 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 290402003236 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 290402003237 catalytic triad [active] 290402003238 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 290402003239 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290402003240 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 290402003241 Cell division protein ZapA; Region: ZapA; pfam05164 290402003242 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 290402003243 Peptidase family U32; Region: Peptidase_U32; pfam01136 290402003244 Collagenase; Region: DUF3656; pfam12392 290402003245 Peptidase family U32; Region: Peptidase_U32; cl03113 290402003246 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 290402003247 MutS domain III; Region: MutS_III; pfam05192 290402003248 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 290402003249 Walker A/P-loop; other site 290402003250 ATP binding site [chemical binding]; other site 290402003251 Q-loop/lid; other site 290402003252 ABC transporter signature motif; other site 290402003253 Walker B; other site 290402003254 D-loop; other site 290402003255 H-loop/switch region; other site 290402003256 Smr domain; Region: Smr; pfam01713 290402003257 Protein of unknown function (DUF523); Region: DUF523; pfam04463 290402003258 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 290402003259 catalytic residue [active] 290402003260 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 290402003261 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 290402003262 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 290402003263 active site 290402003264 P-loop; other site 290402003265 phosphorylation site [posttranslational modification] 290402003266 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 290402003267 methionine cluster; other site 290402003268 active site 290402003269 phosphorylation site [posttranslational modification] 290402003270 metal binding site [ion binding]; metal-binding site 290402003271 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 290402003272 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 290402003273 Walker B motif; other site 290402003274 arginine finger; other site 290402003275 Transcriptional antiterminator [Transcription]; Region: COG3933 290402003276 PRD domain; Region: PRD; pfam00874 290402003277 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290402003278 active pocket/dimerization site; other site 290402003279 active site 290402003280 phosphorylation site [posttranslational modification] 290402003281 PRD domain; Region: PRD; pfam00874 290402003282 Helix-turn-helix domain; Region: HTH_20; pfam12840 290402003283 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 290402003284 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290402003285 Walker A motif; other site 290402003286 ATP binding site [chemical binding]; other site 290402003287 Walker B motif; other site 290402003288 arginine finger; other site 290402003289 Transcriptional antiterminator [Transcription]; Region: COG3933 290402003290 PRD domain; Region: PRD; pfam00874 290402003291 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 290402003292 active pocket/dimerization site; other site 290402003293 active site 290402003294 phosphorylation site [posttranslational modification] 290402003295 PRD domain; Region: PRD; pfam00874 290402003296 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290402003297 active pocket/dimerization site; other site 290402003298 active site 290402003299 phosphorylation site [posttranslational modification] 290402003300 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 290402003301 active site 290402003302 phosphorylation site [posttranslational modification] 290402003303 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 290402003304 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 290402003305 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 290402003306 A subgroup of the 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_1; cd05710 290402003307 putative active site [active] 290402003308 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 290402003309 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 290402003310 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290402003311 substrate binding site [chemical binding]; other site 290402003312 ATP binding site [chemical binding]; other site 290402003313 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 290402003314 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 290402003315 active site 290402003316 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 290402003317 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 290402003318 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290402003319 Walker A motif; other site 290402003320 ATP binding site [chemical binding]; other site 290402003321 Walker B motif; other site 290402003322 arginine finger; other site 290402003323 Transcriptional antiterminator [Transcription]; Region: COG3933 290402003324 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 290402003325 active pocket/dimerization site; other site 290402003326 active site 290402003327 phosphorylation site [posttranslational modification] 290402003328 PRD domain; Region: PRD; pfam00874 290402003329 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 290402003330 active pocket/dimerization site; other site 290402003331 active site 290402003332 phosphorylation site [posttranslational modification] 290402003333 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 290402003334 active site 290402003335 phosphorylation site [posttranslational modification] 290402003336 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 290402003337 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 290402003338 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 290402003339 dimer interface [polypeptide binding]; other site 290402003340 active site 290402003341 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 290402003342 dimer interface [polypeptide binding]; other site 290402003343 active site 290402003344 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 290402003345 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 290402003346 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402003347 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 290402003348 salt bridge; other site 290402003349 non-specific DNA binding site [nucleotide binding]; other site 290402003350 sequence-specific DNA binding site [nucleotide binding]; other site 290402003351 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 290402003352 Penicillinase repressor; Region: Pencillinase_R; pfam03965 290402003353 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 290402003354 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 290402003355 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 290402003356 ATP binding site [chemical binding]; other site 290402003357 putative Mg++ binding site [ion binding]; other site 290402003358 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 290402003359 nucleotide binding region [chemical binding]; other site 290402003360 ATP-binding site [chemical binding]; other site 290402003361 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402003362 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402003363 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 290402003364 putative active site [active] 290402003365 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 290402003366 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 290402003367 active site 290402003368 motif I; other site 290402003369 motif II; other site 290402003370 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 290402003371 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290402003372 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 290402003373 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 290402003374 active site 290402003375 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 290402003376 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290402003377 H+ Antiporter protein; Region: 2A0121; TIGR00900 290402003378 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402003379 putative substrate translocation pore; other site 290402003380 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402003381 putative substrate translocation pore; other site 290402003382 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 290402003383 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 290402003384 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290402003385 active site 290402003386 metal binding site [ion binding]; metal-binding site 290402003387 DNA binding site [nucleotide binding] 290402003388 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 290402003389 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 290402003390 AAA domain; Region: AAA_23; pfam13476 290402003391 Walker A/P-loop; other site 290402003392 ATP binding site [chemical binding]; other site 290402003393 Q-loop/lid; other site 290402003394 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 290402003395 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402003396 ABC transporter signature motif; other site 290402003397 Walker B; other site 290402003398 D-loop; other site 290402003399 H-loop/switch region; other site 290402003400 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 290402003401 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 290402003402 5S rRNA interface [nucleotide binding]; other site 290402003403 CTC domain interface [polypeptide binding]; other site 290402003404 L16 interface [polypeptide binding]; other site 290402003405 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 290402003406 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 290402003407 active site 290402003408 substrate binding site [chemical binding]; other site 290402003409 metal binding site [ion binding]; metal-binding site 290402003410 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 290402003411 binding surface 290402003412 Tetratricopeptide repeat; Region: TPR_12; pfam13424 290402003413 TPR motif; other site 290402003414 Tetratricopeptide repeat; Region: TPR_12; pfam13424 290402003415 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 290402003416 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 290402003417 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 290402003418 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 290402003419 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 290402003420 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290402003421 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 290402003422 O-Antigen ligase; Region: Wzy_C; pfam04932 290402003423 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 290402003424 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 290402003425 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 290402003426 NodB motif; other site 290402003427 active site 290402003428 catalytic site [active] 290402003429 Cd binding site [ion binding]; other site 290402003430 GTP-binding protein YchF; Reviewed; Region: PRK09601 290402003431 YchF GTPase; Region: YchF; cd01900 290402003432 G1 box; other site 290402003433 GTP/Mg2+ binding site [chemical binding]; other site 290402003434 Switch I region; other site 290402003435 G2 box; other site 290402003436 Switch II region; other site 290402003437 G3 box; other site 290402003438 G4 box; other site 290402003439 G5 box; other site 290402003440 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 290402003441 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 290402003442 binding surface 290402003443 TPR motif; other site 290402003444 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 290402003445 TPR motif; other site 290402003446 TPR repeat; Region: TPR_11; pfam13414 290402003447 binding surface 290402003448 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 290402003449 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 290402003450 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 290402003451 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 290402003452 phosphofructokinase; Region: PFK_mixed; TIGR02483 290402003453 active site 290402003454 ADP/pyrophosphate binding site [chemical binding]; other site 290402003455 dimerization interface [polypeptide binding]; other site 290402003456 allosteric effector site; other site 290402003457 fructose-1,6-bisphosphate binding site; other site 290402003458 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 290402003459 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 290402003460 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 290402003461 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 290402003462 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 290402003463 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 290402003464 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 290402003465 dihydroorotase; Validated; Region: pyrC; PRK09357 290402003466 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 290402003467 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 290402003468 active site 290402003469 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 290402003470 active site 290402003471 dimer interface [polypeptide binding]; other site 290402003472 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 290402003473 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 290402003474 FAD binding pocket [chemical binding]; other site 290402003475 FAD binding motif [chemical binding]; other site 290402003476 phosphate binding motif [ion binding]; other site 290402003477 beta-alpha-beta structure motif; other site 290402003478 NAD binding pocket [chemical binding]; other site 290402003479 Iron coordination center [ion binding]; other site 290402003480 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 290402003481 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 290402003482 heterodimer interface [polypeptide binding]; other site 290402003483 active site 290402003484 FMN binding site [chemical binding]; other site 290402003485 homodimer interface [polypeptide binding]; other site 290402003486 substrate binding site [chemical binding]; other site 290402003487 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402003488 active site 290402003489 stationary phase survival protein SurE; Provisional; Region: PRK13933 290402003490 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 290402003491 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 290402003492 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 290402003493 Pyruvate formate lyase 1; Region: PFL1; cd01678 290402003494 coenzyme A binding site [chemical binding]; other site 290402003495 active site 290402003496 catalytic residues [active] 290402003497 glycine loop; other site 290402003498 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 290402003499 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 290402003500 FeS/SAM binding site; other site 290402003501 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 290402003502 Pyruvate formate lyase 1; Region: PFL1; cd01678 290402003503 coenzyme A binding site [chemical binding]; other site 290402003504 active site 290402003505 catalytic residues [active] 290402003506 glycine loop; other site 290402003507 Rubredoxin [Energy production and conversion]; Region: COG1773 290402003508 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 290402003509 iron binding site [ion binding]; other site 290402003510 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 290402003511 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 290402003512 active site 290402003513 catalytic site [active] 290402003514 substrate binding site [chemical binding]; other site 290402003515 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 290402003516 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 290402003517 NAD binding site [chemical binding]; other site 290402003518 dimer interface [polypeptide binding]; other site 290402003519 substrate binding site [chemical binding]; other site 290402003520 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402003521 Biotin operon repressor [Transcription]; Region: BirA; COG1654 290402003522 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 290402003523 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 290402003524 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 290402003525 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 290402003526 Peptidase family M50; Region: Peptidase_M50; pfam02163 290402003527 active site 290402003528 putative substrate binding region [chemical binding]; other site 290402003529 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 290402003530 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 290402003531 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 290402003532 active site 290402003533 HIGH motif; other site 290402003534 KMSK motif region; other site 290402003535 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 290402003536 tRNA binding surface [nucleotide binding]; other site 290402003537 anticodon binding site; other site 290402003538 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 290402003539 Domain of unknown function DUF20; Region: UPF0118; pfam01594 290402003540 Nitroreductase-like family 3. 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_3; cd02139 290402003541 putative FMN binding site [chemical binding]; other site 290402003542 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 290402003543 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 290402003544 motif II; other site 290402003545 RNase_H superfamily; Region: RNase_H_2; pfam13482 290402003546 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 290402003547 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 290402003548 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_HprK; cl00270 290402003549 active site 290402003550 metal-binding site [ion binding] 290402003551 nucleotide-binding site [chemical binding]; other site 290402003552 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 290402003553 Domain of unknown function (DUF378); Region: DUF378; cl00943 290402003554 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 290402003555 AsnC family; Region: AsnC_trans_reg; pfam01037 290402003556 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 290402003557 active site 290402003558 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 290402003559 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 290402003560 trimer interface [polypeptide binding]; other site 290402003561 putative metal binding site [ion binding]; other site 290402003562 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 290402003563 S1 domain; Region: S1_2; pfam13509 290402003564 S1 domain; Region: S1_2; pfam13509 290402003565 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 290402003566 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 290402003567 active site 290402003568 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 290402003569 dimer interface [polypeptide binding]; other site 290402003570 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 290402003571 Ligand Binding Site [chemical binding]; other site 290402003572 Molecular Tunnel; other site 290402003573 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 290402003574 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 290402003575 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290402003576 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 290402003577 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 290402003578 motif II; other site 290402003579 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 290402003580 Protein of unknown function (DUF327); Region: DUF327; pfam03885 290402003581 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 290402003582 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 290402003583 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290402003584 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 290402003585 dimer interface [polypeptide binding]; other site 290402003586 conserved gate region; other site 290402003587 putative PBP binding loops; other site 290402003588 ABC-ATPase subunit interface; other site 290402003589 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402003590 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402003591 Walker A/P-loop; other site 290402003592 ATP binding site [chemical binding]; other site 290402003593 Q-loop/lid; other site 290402003594 ABC transporter signature motif; other site 290402003595 Walker B; other site 290402003596 D-loop; other site 290402003597 H-loop/switch region; other site 290402003598 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402003599 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402003600 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 290402003601 Walker A/P-loop; other site 290402003602 ATP binding site [chemical binding]; other site 290402003603 Q-loop/lid; other site 290402003604 ABC transporter signature motif; other site 290402003605 Walker B; other site 290402003606 D-loop; other site 290402003607 H-loop/switch region; other site 290402003608 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 290402003609 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 290402003610 homodimer interface [polypeptide binding]; other site 290402003611 substrate-cofactor binding pocket; other site 290402003612 catalytic residue [active] 290402003613 NAD synthetase; Reviewed; Region: nadE; PRK02628 290402003614 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 290402003615 multimer interface [polypeptide binding]; other site 290402003616 active site 290402003617 catalytic triad [active] 290402003618 protein interface 1 [polypeptide binding]; other site 290402003619 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 290402003620 homodimer interface [polypeptide binding]; other site 290402003621 NAD binding pocket [chemical binding]; other site 290402003622 ATP binding pocket [chemical binding]; other site 290402003623 Mg binding site [ion binding]; other site 290402003624 active-site loop [active] 290402003625 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 290402003626 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 290402003627 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 290402003628 EcsC protein family; Region: EcsC; pfam12787 290402003629 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402003630 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 290402003631 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290402003632 substrate binding pocket [chemical binding]; other site 290402003633 membrane-bound complex binding site; other site 290402003634 hinge residues; other site 290402003635 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 290402003636 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 290402003637 dimer interface [polypeptide binding]; other site 290402003638 conserved gate region; other site 290402003639 putative PBP binding loops; other site 290402003640 ABC-ATPase subunit interface; other site 290402003641 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 290402003642 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290402003643 Walker A/P-loop; other site 290402003644 ATP binding site [chemical binding]; other site 290402003645 Q-loop/lid; other site 290402003646 ABC transporter signature motif; other site 290402003647 Walker B; other site 290402003648 D-loop; other site 290402003649 H-loop/switch region; other site 290402003650 Probable zinc-binding domain; Region: zf-trcl; pfam13451 290402003651 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 290402003652 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 290402003653 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 290402003654 dimerization interface [polypeptide binding]; other site 290402003655 ATP binding site [chemical binding]; other site 290402003656 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 290402003657 dimerization interface [polypeptide binding]; other site 290402003658 ATP binding site [chemical binding]; other site 290402003659 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 290402003660 putative active site [active] 290402003661 catalytic triad [active] 290402003662 AIR carboxylase; Region: AIRC; pfam00731 290402003663 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 290402003664 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 290402003665 ATP binding site [chemical binding]; other site 290402003666 active site 290402003667 substrate binding site [chemical binding]; other site 290402003668 amidophosphoribosyltransferase; Provisional; Region: PRK05793 290402003669 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 290402003670 active site 290402003671 tetramer interface [polypeptide binding]; other site 290402003672 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402003673 active site 290402003674 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 290402003675 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 290402003676 dimerization interface [polypeptide binding]; other site 290402003677 putative ATP binding site [chemical binding]; other site 290402003678 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 290402003679 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 290402003680 active site 290402003681 substrate binding site [chemical binding]; other site 290402003682 cosubstrate binding site; other site 290402003683 catalytic site [active] 290402003684 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 290402003685 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 290402003686 purine monophosphate binding site [chemical binding]; other site 290402003687 dimer interface [polypeptide binding]; other site 290402003688 putative catalytic residues [active] 290402003689 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 290402003690 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 290402003691 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 290402003692 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 290402003693 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 290402003694 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 290402003695 Penicillinase repressor; Region: Pencillinase_R; pfam03965 290402003696 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 290402003697 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 290402003698 binding surface 290402003699 TPR motif; other site 290402003700 TPR repeat; Region: TPR_11; pfam13414 290402003701 TPR repeat; Region: TPR_11; pfam13414 290402003702 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 290402003703 binding surface 290402003704 TPR motif; other site 290402003705 TPR repeat; Region: TPR_11; pfam13414 290402003706 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 290402003707 binding surface 290402003708 TPR motif; other site 290402003709 TPR repeat; Region: TPR_11; pfam13414 290402003710 MarR family; Region: MarR_2; pfam12802 290402003711 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 290402003712 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 290402003713 dimer interface [polypeptide binding]; other site 290402003714 active site 290402003715 CoA binding pocket [chemical binding]; other site 290402003716 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 290402003717 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 290402003718 FMN binding site [chemical binding]; other site 290402003719 substrate binding site [chemical binding]; other site 290402003720 putative catalytic residue [active] 290402003721 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 290402003722 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 290402003723 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 290402003724 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 290402003725 NAD(P) binding site [chemical binding]; other site 290402003726 homotetramer interface [polypeptide binding]; other site 290402003727 homodimer interface [polypeptide binding]; other site 290402003728 active site 290402003729 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 290402003730 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 290402003731 dimer interface [polypeptide binding]; other site 290402003732 active site 290402003733 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 290402003734 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 290402003735 carboxyltransferase (CT) interaction site; other site 290402003736 biotinylation site [posttranslational modification]; other site 290402003737 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 290402003738 biotin carboxylase; Validated; Region: PRK05586 290402003739 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290402003740 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 290402003741 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 290402003742 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 290402003743 RNA polymerase subunit 9; Region: RPOL9; smart00661 290402003744 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 290402003745 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 290402003746 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 290402003747 hexamer interface [polypeptide binding]; other site 290402003748 RNA binding site [nucleotide binding]; other site 290402003749 Histidine-zinc binding site [chemical binding]; other site 290402003750 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 290402003751 zinc binding site [ion binding]; other site 290402003752 putative ligand binding site [chemical binding]; other site 290402003753 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402003754 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 290402003755 TM-ABC transporter signature motif; other site 290402003756 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 290402003757 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402003758 Walker A/P-loop; other site 290402003759 ATP binding site [chemical binding]; other site 290402003760 Q-loop/lid; other site 290402003761 ABC transporter signature motif; other site 290402003762 Walker B; other site 290402003763 D-loop; other site 290402003764 H-loop/switch region; other site 290402003765 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402003766 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 290402003767 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 290402003768 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402003769 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402003770 ligand binding site [chemical binding]; other site 290402003771 calcium binding site [ion binding]; other site 290402003772 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290402003773 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 290402003774 GAF domain; Region: GAF_3; pfam13492 290402003775 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402003776 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402003777 metal binding site [ion binding]; metal-binding site 290402003778 active site 290402003779 I-site; other site 290402003780 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 290402003781 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 290402003782 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 290402003783 acyl-activating enzyme (AAE) consensus motif; other site 290402003784 AMP binding site [chemical binding]; other site 290402003785 Phosphopantetheine attachment site; Region: PP-binding; cl09936 290402003786 Predicted integral membrane protein [Function unknown]; Region: COG5652 290402003787 recombination factor protein RarA; Reviewed; Region: PRK13342 290402003788 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 290402003789 Walker A motif; other site 290402003790 ATP binding site [chemical binding]; other site 290402003791 Walker B motif; other site 290402003792 arginine finger; other site 290402003793 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 290402003794 Transcriptional regulator; Region: Rrf2; cl17282 290402003795 Rrf2 family protein; Region: rrf2_super; TIGR00738 290402003796 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 290402003797 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 290402003798 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290402003799 catalytic residue [active] 290402003800 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 290402003801 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 290402003802 trimerization site [polypeptide binding]; other site 290402003803 active site 290402003804 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 290402003805 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 290402003806 Ligand Binding Site [chemical binding]; other site 290402003807 Sec24-related protein; Provisional; Region: PTZ00395 290402003808 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 290402003809 PRC-barrel domain; Region: PRC; pfam05239 290402003810 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 290402003811 Domain of unknown function DUF20; Region: UPF0118; pfam01594 290402003812 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 290402003813 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 290402003814 motif 1; other site 290402003815 active site 290402003816 motif 2; other site 290402003817 motif 3; other site 290402003818 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 290402003819 DHHA1 domain; Region: DHHA1; pfam02272 290402003820 hypothetical protein; Provisional; Region: PRK05473 290402003821 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 290402003822 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 290402003823 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 290402003824 metal binding site 2 [ion binding]; metal-binding site 290402003825 putative DNA binding helix; other site 290402003826 metal binding site 1 [ion binding]; metal-binding site 290402003827 dimer interface [polypeptide binding]; other site 290402003828 structural Zn2+ binding site [ion binding]; other site 290402003829 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 290402003830 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402003831 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 290402003832 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 290402003833 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 290402003834 G1 box; other site 290402003835 putative GEF interaction site [polypeptide binding]; other site 290402003836 GTP/Mg2+ binding site [chemical binding]; other site 290402003837 Switch I region; other site 290402003838 G2 box; other site 290402003839 G3 box; other site 290402003840 Switch II region; other site 290402003841 G4 box; other site 290402003842 G5 box; other site 290402003843 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 290402003844 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 290402003845 YceG-like family; Region: YceG; pfam02618 290402003846 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 290402003847 dimerization interface [polypeptide binding]; other site 290402003848 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 290402003849 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 290402003850 S-adenosylmethionine binding site [chemical binding]; other site 290402003851 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 290402003852 Peptidase family U32; Region: Peptidase_U32; pfam01136 290402003853 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 290402003854 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290402003855 sporulation sigma factor SigK; Reviewed; Region: PRK05803 290402003856 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402003857 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 290402003858 DNA binding residues [nucleotide binding] 290402003859 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 290402003860 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 290402003861 Walker A motif; other site 290402003862 ATP binding site [chemical binding]; other site 290402003863 Walker B motif; other site 290402003864 cell division protein FtsA; Region: ftsA; TIGR01174 290402003865 Cell division protein FtsA; Region: FtsA; smart00842 290402003866 Cell division protein FtsA; Region: FtsA; pfam14450 290402003867 cell division protein FtsZ; Validated; Region: PRK09330 290402003868 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 290402003869 nucleotide binding site [chemical binding]; other site 290402003870 SulA interaction site; other site 290402003871 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 290402003872 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 290402003873 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 290402003874 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402003875 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 290402003876 DNA binding residues [nucleotide binding] 290402003877 sporulation sigma factor SigG; Reviewed; Region: PRK08215 290402003878 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402003879 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 290402003880 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 290402003881 DNA binding residues [nucleotide binding] 290402003882 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 290402003883 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 290402003884 ATP cone domain; Region: ATP-cone; pfam03477 290402003885 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 290402003886 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 290402003887 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402003888 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402003889 active site 290402003890 phosphorylation site [posttranslational modification] 290402003891 intermolecular recognition site; other site 290402003892 dimerization interface [polypeptide binding]; other site 290402003893 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 290402003894 DNA binding site [nucleotide binding] 290402003895 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 290402003896 dimerization interface [polypeptide binding]; other site 290402003897 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 290402003898 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 290402003899 dimer interface [polypeptide binding]; other site 290402003900 phosphorylation site [posttranslational modification] 290402003901 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402003902 ATP binding site [chemical binding]; other site 290402003903 Mg2+ binding site [ion binding]; other site 290402003904 G-X-G motif; other site 290402003905 PBP superfamily domain; Region: PBP_like_2; cl17296 290402003906 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 290402003907 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 290402003908 dimer interface [polypeptide binding]; other site 290402003909 conserved gate region; other site 290402003910 putative PBP binding loops; other site 290402003911 ABC-ATPase subunit interface; other site 290402003912 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 290402003913 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 290402003914 dimer interface [polypeptide binding]; other site 290402003915 conserved gate region; other site 290402003916 putative PBP binding loops; other site 290402003917 ABC-ATPase subunit interface; other site 290402003918 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 290402003919 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 290402003920 Walker A/P-loop; other site 290402003921 ATP binding site [chemical binding]; other site 290402003922 Q-loop/lid; other site 290402003923 ABC transporter signature motif; other site 290402003924 Walker B; other site 290402003925 D-loop; other site 290402003926 H-loop/switch region; other site 290402003927 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 290402003928 PhoU domain; Region: PhoU; pfam01895 290402003929 PhoU domain; Region: PhoU; pfam01895 290402003930 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 290402003931 PhoU domain; Region: PhoU; pfam01895 290402003932 PhoU domain; Region: PhoU; pfam01895 290402003933 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 290402003934 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 290402003935 Protein of unknown function (DUF512); Region: DUF512; pfam04459 290402003936 GTP-binding protein Der; Reviewed; Region: PRK00093 290402003937 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 290402003938 G1 box; other site 290402003939 GTP/Mg2+ binding site [chemical binding]; other site 290402003940 Switch I region; other site 290402003941 G2 box; other site 290402003942 Switch II region; other site 290402003943 G3 box; other site 290402003944 G4 box; other site 290402003945 G5 box; other site 290402003946 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 290402003947 G1 box; other site 290402003948 GTP/Mg2+ binding site [chemical binding]; other site 290402003949 Switch I region; other site 290402003950 G2 box; other site 290402003951 G3 box; other site 290402003952 Switch II region; other site 290402003953 G4 box; other site 290402003954 G5 box; other site 290402003955 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 290402003956 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 290402003957 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 290402003958 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 290402003959 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 290402003960 hypothetical protein; Provisional; Region: PRK11820 290402003961 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 290402003962 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 290402003963 hypothetical protein; Provisional; Region: PRK04323 290402003964 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 290402003965 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 290402003966 catalytic site [active] 290402003967 G-X2-G-X-G-K; other site 290402003968 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 290402003969 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 290402003970 Flavoprotein; Region: Flavoprotein; pfam02441 290402003971 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 290402003972 primosome assembly protein PriA; Validated; Region: PRK05580 290402003973 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 290402003974 ATP binding site [chemical binding]; other site 290402003975 putative Mg++ binding site [ion binding]; other site 290402003976 helicase superfamily c-terminal domain; Region: HELICc; smart00490 290402003977 ATP-binding site [chemical binding]; other site 290402003978 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 290402003979 active site 290402003980 catalytic residues [active] 290402003981 metal binding site [ion binding]; metal-binding site 290402003982 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 290402003983 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 290402003984 putative active site [active] 290402003985 substrate binding site [chemical binding]; other site 290402003986 putative cosubstrate binding site; other site 290402003987 catalytic site [active] 290402003988 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 290402003989 substrate binding site [chemical binding]; other site 290402003990 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 290402003991 16S rRNA methyltransferase B; Provisional; Region: PRK14902 290402003992 NusB family; Region: NusB; pfam01029 290402003993 putative RNA binding site [nucleotide binding]; other site 290402003994 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 290402003995 S-adenosylmethionine binding site [chemical binding]; other site 290402003996 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 290402003997 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 290402003998 FeS/SAM binding site; other site 290402003999 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; cd00143 290402004000 Protein phosphatase 2C; Region: PP2C; pfam00481 290402004001 active site 290402004002 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 290402004003 Catalytic domain of Protein Kinases; Region: PKc; cd00180 290402004004 active site 290402004005 ATP binding site [chemical binding]; other site 290402004006 substrate binding site [chemical binding]; other site 290402004007 activation loop (A-loop); other site 290402004008 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 290402004009 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 290402004010 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 290402004011 GTPase RsgA; Reviewed; Region: PRK00098 290402004012 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 290402004013 RNA binding site [nucleotide binding]; other site 290402004014 homodimer interface [polypeptide binding]; other site 290402004015 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 290402004016 GTPase/Zn-binding domain interface [polypeptide binding]; other site 290402004017 GTP/Mg2+ binding site [chemical binding]; other site 290402004018 G4 box; other site 290402004019 G5 box; other site 290402004020 G1 box; other site 290402004021 Switch I region; other site 290402004022 G2 box; other site 290402004023 G3 box; other site 290402004024 Switch II region; other site 290402004025 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 290402004026 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 290402004027 substrate binding site [chemical binding]; other site 290402004028 hexamer interface [polypeptide binding]; other site 290402004029 metal binding site [ion binding]; metal-binding site 290402004030 Thiamine pyrophosphokinase; Region: TPK; cd07995 290402004031 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 290402004032 active site 290402004033 dimerization interface [polypeptide binding]; other site 290402004034 thiamine binding site [chemical binding]; other site 290402004035 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 290402004036 Asp23 family; Region: Asp23; pfam03780 290402004037 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 290402004038 DAK2 domain; Region: Dak2; pfam02734 290402004039 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 290402004040 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 290402004041 ssDNA binding site; other site 290402004042 generic binding surface II; other site 290402004043 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 290402004044 ATP binding site [chemical binding]; other site 290402004045 putative Mg++ binding site [ion binding]; other site 290402004046 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 290402004047 nucleotide binding region [chemical binding]; other site 290402004048 ATP-binding site [chemical binding]; other site 290402004049 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 290402004050 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 290402004051 S-adenosylmethionine binding site [chemical binding]; other site 290402004052 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 290402004053 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 290402004054 active site 290402004055 (T/H)XGH motif; other site 290402004056 V-type ATP synthase subunit E; Provisional; Region: PRK01005 290402004057 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 290402004058 Nucleoside recognition; Region: Gate; pfam07670 290402004059 hypothetical protein; Provisional; Region: PRK13670 290402004060 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 290402004061 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 290402004062 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 290402004063 propionate/acetate kinase; Provisional; Region: PRK12379 290402004064 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 290402004065 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 290402004066 putative phosphate acyltransferase; Provisional; Region: PRK05331 290402004067 acyl carrier protein; Provisional; Region: acpP; PRK00982 290402004068 ribonuclease III; Reviewed; Region: rnc; PRK00102 290402004069 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 290402004070 dimerization interface [polypeptide binding]; other site 290402004071 active site 290402004072 metal binding site [ion binding]; metal-binding site 290402004073 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 290402004074 dsRNA binding site [nucleotide binding]; other site 290402004075 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 290402004076 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 290402004077 FeS/SAM binding site; other site 290402004078 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 290402004079 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 290402004080 Walker A/P-loop; other site 290402004081 ATP binding site [chemical binding]; other site 290402004082 Q-loop/lid; other site 290402004083 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 290402004084 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 290402004085 ABC transporter signature motif; other site 290402004086 Walker B; other site 290402004087 D-loop; other site 290402004088 H-loop/switch region; other site 290402004089 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 290402004090 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 290402004091 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 290402004092 P loop; other site 290402004093 GTP binding site [chemical binding]; other site 290402004094 putative DNA-binding protein; Validated; Region: PRK00118 290402004095 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 290402004096 signal recognition particle protein; Provisional; Region: PRK10867 290402004097 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 290402004098 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 290402004099 P loop; other site 290402004100 GTP binding site [chemical binding]; other site 290402004101 Signal peptide binding domain; Region: SRP_SPB; pfam02978 290402004102 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 290402004103 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 290402004104 hypothetical protein; Provisional; Region: PRK00468 290402004105 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 290402004106 RimM N-terminal domain; Region: RimM; pfam01782 290402004107 PRC-barrel domain; Region: PRC; pfam05239 290402004108 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 290402004109 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 290402004110 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 290402004111 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 290402004112 GTP/Mg2+ binding site [chemical binding]; other site 290402004113 G4 box; other site 290402004114 G5 box; other site 290402004115 G1 box; other site 290402004116 Switch I region; other site 290402004117 G2 box; other site 290402004118 G3 box; other site 290402004119 Switch II region; other site 290402004120 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 290402004121 RNA/DNA hybrid binding site [nucleotide binding]; other site 290402004122 active site 290402004123 hypothetical protein; Reviewed; Region: PRK12497 290402004124 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 290402004125 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 290402004126 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 290402004127 Walker A motif; other site 290402004128 ATP binding site [chemical binding]; other site 290402004129 Walker B motif; other site 290402004130 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 290402004131 DNA protecting protein DprA; Region: dprA; TIGR00732 290402004132 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 290402004133 DNA topoisomerase I; Validated; Region: PRK05582 290402004134 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 290402004135 active site 290402004136 interdomain interaction site; other site 290402004137 putative metal-binding site [ion binding]; other site 290402004138 nucleotide binding site [chemical binding]; other site 290402004139 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 290402004140 domain I; other site 290402004141 DNA binding groove [nucleotide binding] 290402004142 phosphate binding site [ion binding]; other site 290402004143 domain II; other site 290402004144 domain III; other site 290402004145 nucleotide binding site [chemical binding]; other site 290402004146 catalytic site [active] 290402004147 domain IV; other site 290402004148 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 290402004149 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 290402004150 transcriptional repressor CodY; Validated; Region: PRK04158 290402004151 CodY GAF-like domain; Region: CodY; pfam06018 290402004152 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 290402004153 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 290402004154 rRNA interaction site [nucleotide binding]; other site 290402004155 S8 interaction site; other site 290402004156 putative laminin-1 binding site; other site 290402004157 elongation factor Ts; Provisional; Region: tsf; PRK09377 290402004158 UBA/TS-N domain; Region: UBA; pfam00627 290402004159 Elongation factor TS; Region: EF_TS; pfam00889 290402004160 Elongation factor TS; Region: EF_TS; pfam00889 290402004161 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 290402004162 putative nucleotide binding site [chemical binding]; other site 290402004163 uridine monophosphate binding site [chemical binding]; other site 290402004164 homohexameric interface [polypeptide binding]; other site 290402004165 ribosome recycling factor; Reviewed; Region: frr; PRK00083 290402004166 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 290402004167 hinge region; other site 290402004168 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 290402004169 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 290402004170 catalytic residue [active] 290402004171 putative FPP diphosphate binding site; other site 290402004172 putative FPP binding hydrophobic cleft; other site 290402004173 dimer interface [polypeptide binding]; other site 290402004174 putative IPP diphosphate binding site; other site 290402004175 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 290402004176 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 290402004177 Domain of unknown function DUF20; Region: UPF0118; pfam01594 290402004178 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 290402004179 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 290402004180 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 290402004181 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 290402004182 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 290402004183 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 290402004184 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 290402004185 active site 290402004186 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 290402004187 protein binding site [polypeptide binding]; other site 290402004188 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 290402004189 putative substrate binding region [chemical binding]; other site 290402004190 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 290402004191 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 290402004192 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 290402004193 ribosome maturation protein RimP; Reviewed; Region: PRK00092 290402004194 Sm and related proteins; Region: Sm_like; cl00259 290402004195 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 290402004196 putative oligomer interface [polypeptide binding]; other site 290402004197 putative RNA binding site [nucleotide binding]; other site 290402004198 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 290402004199 NusA N-terminal domain; Region: NusA_N; pfam08529 290402004200 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 290402004201 RNA binding site [nucleotide binding]; other site 290402004202 homodimer interface [polypeptide binding]; other site 290402004203 NusA-like KH domain; Region: KH_5; pfam13184 290402004204 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 290402004205 G-X-X-G motif; other site 290402004206 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 290402004207 putative RNA binding cleft [nucleotide binding]; other site 290402004208 ribosomal protein L7Ae family protein; Provisional; Region: PRK05583 290402004209 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 290402004210 translation initiation factor IF-2; Region: IF-2; TIGR00487 290402004211 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 290402004212 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 290402004213 G1 box; other site 290402004214 putative GEF interaction site [polypeptide binding]; other site 290402004215 GTP/Mg2+ binding site [chemical binding]; other site 290402004216 Switch I region; other site 290402004217 G2 box; other site 290402004218 G3 box; other site 290402004219 Switch II region; other site 290402004220 G4 box; other site 290402004221 G5 box; other site 290402004222 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 290402004223 Translation-initiation factor 2; Region: IF-2; pfam11987 290402004224 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 290402004225 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 290402004226 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 290402004227 DHH family; Region: DHH; pfam01368 290402004228 DHHA1 domain; Region: DHHA1; pfam02272 290402004229 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 290402004230 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 290402004231 RNA binding site [nucleotide binding]; other site 290402004232 active site 290402004233 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 290402004234 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 290402004235 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 290402004236 active site 290402004237 Riboflavin kinase; Region: Flavokinase; pfam01687 290402004238 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 290402004239 16S/18S rRNA binding site [nucleotide binding]; other site 290402004240 S13e-L30e interaction site [polypeptide binding]; other site 290402004241 25S rRNA binding site [nucleotide binding]; other site 290402004242 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 290402004243 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 290402004244 RNase E interface [polypeptide binding]; other site 290402004245 trimer interface [polypeptide binding]; other site 290402004246 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 290402004247 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 290402004248 RNase E interface [polypeptide binding]; other site 290402004249 trimer interface [polypeptide binding]; other site 290402004250 active site 290402004251 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 290402004252 putative nucleic acid binding region [nucleotide binding]; other site 290402004253 G-X-X-G motif; other site 290402004254 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 290402004255 RNA binding site [nucleotide binding]; other site 290402004256 domain interface; other site 290402004257 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 290402004258 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 290402004259 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 290402004260 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 290402004261 aspartate kinase I; Reviewed; Region: PRK08210 290402004262 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 290402004263 nucleotide binding site [chemical binding]; other site 290402004264 substrate binding site [chemical binding]; other site 290402004265 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 290402004266 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 290402004267 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 290402004268 Clp protease; Region: CLP_protease; pfam00574 290402004269 active site 290402004270 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 290402004271 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 290402004272 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 290402004273 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 290402004274 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 290402004275 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 290402004276 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 290402004277 FeS/SAM binding site; other site 290402004278 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 290402004279 recombinase A; Provisional; Region: recA; PRK09354 290402004280 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 290402004281 hexamer interface [polypeptide binding]; other site 290402004282 Walker A motif; other site 290402004283 ATP binding site [chemical binding]; other site 290402004284 Walker B motif; other site 290402004285 phosphodiesterase; Provisional; Region: PRK12704 290402004286 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402004287 Zn2+ binding site [ion binding]; other site 290402004288 Mg2+ binding site [ion binding]; other site 290402004289 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 290402004290 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 290402004291 dimerization domain swap beta strand [polypeptide binding]; other site 290402004292 regulatory protein interface [polypeptide binding]; other site 290402004293 active site 290402004294 regulatory phosphorylation site [posttranslational modification]; other site 290402004295 Domain of unknown function (DUF378); Region: DUF378; cl00943 290402004296 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 290402004297 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 290402004298 tetramer interface [polypeptide binding]; other site 290402004299 active site 290402004300 Putative amidase domain; Region: Amidase_6; pfam12671 290402004301 Suppression of tumorigenicity 7; Region: ST7; cd11557 290402004302 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 290402004303 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 290402004304 catalytic motif [active] 290402004305 Zn binding site [ion binding]; other site 290402004306 RibD C-terminal domain; Region: RibD_C; cl17279 290402004307 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 290402004308 Lumazine binding domain; Region: Lum_binding; pfam00677 290402004309 Lumazine binding domain; Region: Lum_binding; pfam00677 290402004310 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 290402004311 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 290402004312 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 290402004313 dimerization interface [polypeptide binding]; other site 290402004314 active site 290402004315 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 290402004316 homopentamer interface [polypeptide binding]; other site 290402004317 active site 290402004318 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402004319 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402004320 DNA binding site [nucleotide binding] 290402004321 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 290402004322 putative ligand binding site [chemical binding]; other site 290402004323 putative dimerization interface [polypeptide binding]; other site 290402004324 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290402004325 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 290402004326 dimer interface [polypeptide binding]; other site 290402004327 conserved gate region; other site 290402004328 putative PBP binding loops; other site 290402004329 ABC-ATPase subunit interface; other site 290402004330 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290402004331 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 290402004332 dimer interface [polypeptide binding]; other site 290402004333 conserved gate region; other site 290402004334 putative PBP binding loops; other site 290402004335 ABC-ATPase subunit interface; other site 290402004336 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 290402004337 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 290402004338 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 290402004339 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 290402004340 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 290402004341 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 290402004342 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 290402004343 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 290402004344 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 290402004345 dimerization interface [polypeptide binding]; other site 290402004346 Histidine kinase; Region: His_kinase; pfam06580 290402004347 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402004348 ATP binding site [chemical binding]; other site 290402004349 Mg2+ binding site [ion binding]; other site 290402004350 G-X-G motif; other site 290402004351 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 290402004352 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402004353 active site 290402004354 phosphorylation site [posttranslational modification] 290402004355 intermolecular recognition site; other site 290402004356 dimerization interface [polypeptide binding]; other site 290402004357 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402004358 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 290402004359 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 290402004360 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 290402004361 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 290402004362 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 290402004363 S-ribosylhomocysteinase; Provisional; Region: PRK02260 290402004364 Protein of unknown function, DUF479; Region: DUF479; pfam04336 290402004365 OPT oligopeptide transporter protein; Region: OPT; pfam03169 290402004366 putative oligopeptide transporter, OPT family; Region: TIGR00733 290402004367 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 290402004368 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 290402004369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 290402004370 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 290402004371 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 290402004372 NlpC/P60 family; Region: NLPC_P60; pfam00877 290402004373 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 290402004374 K+ potassium transporter; Region: K_trans; pfam02705 290402004375 hypothetical protein; Provisional; Region: PRK03881 290402004376 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 290402004377 AMMECR1; Region: AMMECR1; pfam01871 290402004378 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 290402004379 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290402004380 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 290402004381 active site 290402004382 metal binding site [ion binding]; metal-binding site 290402004383 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 290402004384 dimerization interface [polypeptide binding]; other site 290402004385 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402004386 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402004387 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 290402004388 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 290402004389 Walker A motif; other site 290402004390 ATP binding site [chemical binding]; other site 290402004391 Walker B motif; other site 290402004392 arginine finger; other site 290402004393 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 290402004394 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 290402004395 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 290402004396 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 290402004397 non-specific DNA binding site [nucleotide binding]; other site 290402004398 salt bridge; other site 290402004399 sequence-specific DNA binding site [nucleotide binding]; other site 290402004400 Cupin domain; Region: Cupin_2; pfam07883 290402004401 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 290402004402 active site 290402004403 SAM binding site [chemical binding]; other site 290402004404 homodimer interface [polypeptide binding]; other site 290402004405 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 290402004406 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 290402004407 Predicted transcriptional regulator [Transcription]; Region: COG3888 290402004408 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 290402004409 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 290402004410 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 290402004411 putative dimer interface [polypeptide binding]; other site 290402004412 active site pocket [active] 290402004413 putative cataytic base [active] 290402004414 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 290402004415 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 290402004416 ATP binding site [chemical binding]; other site 290402004417 Walker B motif; other site 290402004418 cobalamin synthase; Reviewed; Region: cobS; PRK00235 290402004419 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 290402004420 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 290402004421 catalytic core [active] 290402004422 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 290402004423 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 290402004424 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 290402004425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402004426 homodimer interface [polypeptide binding]; other site 290402004427 catalytic residue [active] 290402004428 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402004429 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402004430 Predicted ATPases of PP-loop superfamily [General function prediction only]; Region: COG2102 290402004431 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_IV; cd01994 290402004432 Ligand Binding Site [chemical binding]; other site 290402004433 cobyric acid synthase; Provisional; Region: PRK00784 290402004434 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 290402004435 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 290402004436 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 290402004437 catalytic triad [active] 290402004438 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 290402004439 Domain of unknown function DUF; Region: DUF204; pfam02659 290402004440 sugar phosphate phosphatase; Provisional; Region: PRK10513 290402004441 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 290402004442 active site 290402004443 motif I; other site 290402004444 motif II; other site 290402004445 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290402004446 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 290402004447 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402004448 Zn2+ binding site [ion binding]; other site 290402004449 Mg2+ binding site [ion binding]; other site 290402004450 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 290402004451 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 290402004452 active site 290402004453 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 290402004454 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 290402004455 homoserine O-succinyltransferase; Provisional; Region: PRK05368 290402004456 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 290402004457 proposed active site lysine [active] 290402004458 conserved cys residue [active] 290402004459 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 290402004460 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 290402004461 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 290402004462 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 290402004463 catalytic residue [active] 290402004464 putative FPP diphosphate binding site; other site 290402004465 putative FPP binding hydrophobic cleft; other site 290402004466 dimer interface [polypeptide binding]; other site 290402004467 putative IPP diphosphate binding site; other site 290402004468 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 290402004469 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 290402004470 tRNA; other site 290402004471 putative tRNA binding site [nucleotide binding]; other site 290402004472 putative NADP binding site [chemical binding]; other site 290402004473 precorrin-2 dehydrogenase; Provisional; Region: PRK05562 290402004474 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 290402004475 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 290402004476 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 290402004477 domain interfaces; other site 290402004478 active site 290402004479 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 290402004480 active site 290402004481 SAM binding site [chemical binding]; other site 290402004482 homodimer interface [polypeptide binding]; other site 290402004483 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 290402004484 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 290402004485 active site 290402004486 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 290402004487 dimer interface [polypeptide binding]; other site 290402004488 active site 290402004489 Schiff base residues; other site 290402004490 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 290402004491 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 290402004492 inhibitor-cofactor binding pocket; inhibition site 290402004493 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402004494 catalytic residue [active] 290402004495 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 290402004496 Protein of unknown function (DUF3867); Region: DUF3867; pfam12983 290402004497 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 290402004498 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290402004499 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 290402004500 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 290402004501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402004502 catalytic residue [active] 290402004503 homoserine kinase; Provisional; Region: PRK01212 290402004504 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 290402004505 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 290402004506 hypothetical protein; Provisional; Region: PRK04435 290402004507 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 290402004508 Acyltransferase family; Region: Acyl_transf_3; pfam01757 290402004509 RNA polymerase factor sigma-70; Validated; Region: PRK06811 290402004510 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402004511 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 290402004512 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 290402004513 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 290402004514 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290402004515 methionine sulfoxide reductase A; Provisional; Region: PRK14054 290402004516 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290402004517 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290402004518 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 290402004519 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290402004520 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290402004521 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290402004522 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 290402004523 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 290402004524 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 290402004525 synthetase active site [active] 290402004526 NTP binding site [chemical binding]; other site 290402004527 metal binding site [ion binding]; metal-binding site 290402004528 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290402004529 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 290402004530 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 290402004531 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 290402004532 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290402004533 catalytic residue [active] 290402004534 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 290402004535 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 290402004536 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 290402004537 Ligand Binding Site [chemical binding]; other site 290402004538 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 290402004539 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 290402004540 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 290402004541 dimer interface [polypeptide binding]; other site 290402004542 motif 1; other site 290402004543 active site 290402004544 motif 2; other site 290402004545 motif 3; other site 290402004546 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 290402004547 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 290402004548 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 290402004549 histidinol dehydrogenase; Region: hisD; TIGR00069 290402004550 NAD binding site [chemical binding]; other site 290402004551 dimerization interface [polypeptide binding]; other site 290402004552 product binding site; other site 290402004553 substrate binding site [chemical binding]; other site 290402004554 zinc binding site [ion binding]; other site 290402004555 catalytic residues [active] 290402004556 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 290402004557 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 290402004558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402004559 homodimer interface [polypeptide binding]; other site 290402004560 catalytic residue [active] 290402004561 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 290402004562 putative active site pocket [active] 290402004563 4-fold oligomerization interface [polypeptide binding]; other site 290402004564 metal binding residues [ion binding]; metal-binding site 290402004565 3-fold/trimer interface [polypeptide binding]; other site 290402004566 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 290402004567 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 290402004568 putative active site [active] 290402004569 oxyanion strand; other site 290402004570 catalytic triad [active] 290402004571 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 290402004572 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 290402004573 catalytic residues [active] 290402004574 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 290402004575 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 290402004576 substrate binding site [chemical binding]; other site 290402004577 glutamase interaction surface [polypeptide binding]; other site 290402004578 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 290402004579 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 290402004580 metal binding site [ion binding]; metal-binding site 290402004581 trigger factor; Provisional; Region: tig; PRK01490 290402004582 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 290402004583 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 290402004584 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 290402004585 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 290402004586 oligomer interface [polypeptide binding]; other site 290402004587 active site residues [active] 290402004588 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 290402004589 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 290402004590 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 290402004591 Walker A motif; other site 290402004592 ATP binding site [chemical binding]; other site 290402004593 Walker B motif; other site 290402004594 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 290402004595 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 290402004596 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 290402004597 Walker A motif; other site 290402004598 ATP binding site [chemical binding]; other site 290402004599 Walker B motif; other site 290402004600 arginine finger; other site 290402004601 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 290402004602 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 290402004603 Found in ATP-dependent protease La (LON); Region: LON; smart00464 290402004604 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 290402004605 Walker A motif; other site 290402004606 ATP binding site [chemical binding]; other site 290402004607 Walker B motif; other site 290402004608 arginine finger; other site 290402004609 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 290402004610 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 290402004611 G1 box; other site 290402004612 GTP/Mg2+ binding site [chemical binding]; other site 290402004613 Switch I region; other site 290402004614 G2 box; other site 290402004615 G3 box; other site 290402004616 Switch II region; other site 290402004617 G4 box; other site 290402004618 G5 box; other site 290402004619 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 290402004620 metal binding site 2 [ion binding]; metal-binding site 290402004621 putative DNA binding helix; other site 290402004622 metal binding site 1 [ion binding]; metal-binding site 290402004623 dimer interface [polypeptide binding]; other site 290402004624 structural Zn2+ binding site [ion binding]; other site 290402004625 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 290402004626 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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, reaction...; Region: NAPRTase_A; cd01570 290402004627 active site 290402004628 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 290402004629 Part of AAA domain; Region: AAA_19; pfam13245 290402004630 Family description; Region: UvrD_C_2; pfam13538 290402004631 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 290402004632 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 290402004633 active site 290402004634 catalytic residues [active] 290402004635 DNA binding site [nucleotide binding] 290402004636 Int/Topo IB signature motif; other site 290402004637 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402004638 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 290402004639 non-specific DNA binding site [nucleotide binding]; other site 290402004640 salt bridge; other site 290402004641 sequence-specific DNA binding site [nucleotide binding]; other site 290402004642 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 290402004643 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 290402004644 Short C-terminal domain; Region: SHOCT; pfam09851 290402004645 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 290402004646 Helix-turn-helix domain; Region: HTH_36; pfam13730 290402004647 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 290402004648 non-specific DNA binding site [nucleotide binding]; other site 290402004649 salt bridge; other site 290402004650 sequence-specific DNA binding site [nucleotide binding]; other site 290402004651 large terminase protein; Provisional; Region: 17; PHA02533 290402004652 Terminase-like family; Region: Terminase_6; pfam03237 290402004653 RAP Superfamily; Provisional; Region: PTZ00479 290402004654 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 290402004655 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 290402004656 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 290402004657 Caenorhabditis protein of unknown function, DUF268; Region: DUF268; pfam03269 290402004658 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 290402004659 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 290402004660 active site 290402004661 catalytic residues [active] 290402004662 DNA binding site [nucleotide binding] 290402004663 Int/Topo IB signature motif; other site 290402004664 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 290402004665 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 290402004666 PemK-like protein; Region: PemK; pfam02452 290402004667 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 290402004668 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 290402004669 ligand binding site [chemical binding]; other site 290402004670 Response regulator receiver domain; Region: Response_reg; pfam00072 290402004671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402004672 active site 290402004673 phosphorylation site [posttranslational modification] 290402004674 intermolecular recognition site; other site 290402004675 dimerization interface [polypeptide binding]; other site 290402004676 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402004677 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402004678 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402004679 HAMP domain; Region: HAMP; pfam00672 290402004680 dimerization interface [polypeptide binding]; other site 290402004681 Histidine kinase; Region: His_kinase; pfam06580 290402004682 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402004683 ATP binding site [chemical binding]; other site 290402004684 Mg2+ binding site [ion binding]; other site 290402004685 G-X-G motif; other site 290402004686 putative transporter; Provisional; Region: PRK10484 290402004687 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 290402004688 Na binding site [ion binding]; other site 290402004689 cell division protein FtsA; Region: ftsA; TIGR01174 290402004690 Cell division protein FtsA; Region: FtsA; smart00842 290402004691 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290402004692 nucleotide binding site [chemical binding]; other site 290402004693 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 290402004694 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 290402004695 metal binding site [ion binding]; metal-binding site 290402004696 dimer interface [polypeptide binding]; other site 290402004697 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 290402004698 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 290402004699 active site 290402004700 stage V sporulation protein B; Region: spore_V_B; TIGR02900 290402004701 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 290402004702 stage V sporulation protein B; Region: spore_V_B; TIGR02900 290402004703 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 290402004704 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402004705 putative CheW interface [polypeptide binding]; other site 290402004706 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402004707 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402004708 putative CheW interface [polypeptide binding]; other site 290402004709 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 290402004710 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 290402004711 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 290402004712 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 290402004713 FeS/SAM binding site; other site 290402004714 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 290402004715 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402004716 MarR family; Region: MarR_2; pfam12802 290402004717 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 290402004718 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 290402004719 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 290402004720 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 290402004721 Transposase; Region: HTH_Tnp_1; pfam01527 290402004722 putative transposase OrfB; Reviewed; Region: PHA02517 290402004723 HTH-like domain; Region: HTH_21; pfam13276 290402004724 Integrase core domain; Region: rve; pfam00665 290402004725 Integrase core domain; Region: rve_3; pfam13683 290402004726 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 290402004727 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 290402004728 Mg++ binding site [ion binding]; other site 290402004729 putative catalytic motif [active] 290402004730 substrate binding site [chemical binding]; other site 290402004731 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 290402004732 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 290402004733 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 290402004734 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 290402004735 substrate binding pocket [chemical binding]; other site 290402004736 dimer interface [polypeptide binding]; other site 290402004737 inhibitor binding site; inhibition site 290402004738 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 290402004739 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 290402004740 B12 binding site [chemical binding]; other site 290402004741 cobalt ligand [ion binding]; other site 290402004742 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 290402004743 hypothetical protein; Provisional; Region: PRK13678 290402004744 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 290402004745 HPr kinase/phosphorylase; Provisional; Region: PRK05428 290402004746 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 290402004747 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 290402004748 Hpr binding site; other site 290402004749 active site 290402004750 homohexamer subunit interaction site [polypeptide binding]; other site 290402004751 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 290402004752 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 290402004753 oligomer interface [polypeptide binding]; other site 290402004754 putative active site [active] 290402004755 metal binding site [ion binding]; metal-binding site 290402004756 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 290402004757 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 290402004758 active site 290402004759 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 290402004760 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 290402004761 active site 290402004762 domain interfaces; other site 290402004763 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 290402004764 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 290402004765 HSP70 interaction site [polypeptide binding]; other site 290402004766 Tetratricopeptide repeat; Region: TPR_16; pfam13432 290402004767 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 290402004768 Rubredoxin; Region: Rubredoxin; pfam00301 290402004769 iron binding site [ion binding]; other site 290402004770 Rubrerythrin [Energy production and conversion]; Region: COG1592 290402004771 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 290402004772 diiron binding motif [ion binding]; other site 290402004773 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 290402004774 ADP-ribose binding site [chemical binding]; other site 290402004775 HNH endonuclease; Region: HNH_3; pfam13392 290402004776 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290402004777 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 290402004778 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 290402004779 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 290402004780 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 290402004781 Predicted Ser/Thr protein kinase [Signal transduction mechanisms]; Region: COG2112 290402004782 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 290402004783 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 290402004784 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290402004785 active site 290402004786 HIGH motif; other site 290402004787 nucleotide binding site [chemical binding]; other site 290402004788 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 290402004789 active site 290402004790 KMSKS motif; other site 290402004791 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 290402004792 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 290402004793 dimerization interface [polypeptide binding]; other site 290402004794 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402004795 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402004796 dimer interface [polypeptide binding]; other site 290402004797 putative CheW interface [polypeptide binding]; other site 290402004798 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 290402004799 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290402004800 active site 290402004801 HIGH motif; other site 290402004802 nucleotide binding site [chemical binding]; other site 290402004803 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 290402004804 KMSKS motif; other site 290402004805 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 290402004806 Predicted membrane protein [Function unknown]; Region: COG2364 290402004807 seryl-tRNA synthetase; Provisional; Region: PRK05431 290402004808 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 290402004809 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 290402004810 motif 1; other site 290402004811 dimer interface [polypeptide binding]; other site 290402004812 active site 290402004813 motif 2; other site 290402004814 motif 3; other site 290402004815 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 290402004816 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 290402004817 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402004818 hybrid cluster protein; Provisional; Region: PRK05290 290402004819 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 290402004820 ACS interaction site; other site 290402004821 CODH interaction site; other site 290402004822 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 290402004823 hybrid metal cluster; other site 290402004824 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 290402004825 metal-binding site [ion binding] 290402004826 Uncharacterized conserved protein [Function unknown]; Region: COG2836 290402004827 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 290402004828 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 290402004829 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 290402004830 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 290402004831 active site 290402004832 catalytic triad [active] 290402004833 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 290402004834 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 290402004835 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402004836 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402004837 DNA binding site [nucleotide binding] 290402004838 domain linker motif; other site 290402004839 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 290402004840 dimerization interface [polypeptide binding]; other site 290402004841 ligand binding site [chemical binding]; other site 290402004842 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 290402004843 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 290402004844 dimer interface [polypeptide binding]; other site 290402004845 conserved gate region; other site 290402004846 putative PBP binding loops; other site 290402004847 ABC-ATPase subunit interface; other site 290402004848 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290402004849 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 290402004850 dimer interface [polypeptide binding]; other site 290402004851 conserved gate region; other site 290402004852 putative PBP binding loops; other site 290402004853 ABC-ATPase subunit interface; other site 290402004854 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 290402004855 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 290402004856 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 290402004857 trimer interface [polypeptide binding]; other site 290402004858 active site 290402004859 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 290402004860 catalytic site [active] 290402004861 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 290402004862 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 290402004863 Ca binding site [ion binding]; other site 290402004864 active site 290402004865 catalytic site [active] 290402004866 Predicted secreted protein [Function unknown]; Region: COG4086 290402004867 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 290402004868 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 290402004869 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 290402004870 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 290402004871 dimerization interface [polypeptide binding]; other site 290402004872 putative DNA binding site [nucleotide binding]; other site 290402004873 putative Zn2+ binding site [ion binding]; other site 290402004874 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 290402004875 metal-binding site [ion binding] 290402004876 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 290402004877 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 290402004878 metal-binding site [ion binding] 290402004879 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290402004880 Soluble P-type ATPase [General function prediction only]; Region: COG4087 290402004881 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290402004882 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 290402004883 ligand binding site [chemical binding]; other site 290402004884 flexible hinge region; other site 290402004885 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 290402004886 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 290402004887 active site residue [active] 290402004888 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 290402004889 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 290402004890 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402004891 Coenzyme A binding pocket [chemical binding]; other site 290402004892 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 290402004893 active site 290402004894 catalytic triad [active] 290402004895 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402004896 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402004897 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 290402004898 active site 290402004899 catalytic triad [active] 290402004900 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 290402004901 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 290402004902 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 290402004903 dimer interface [polypeptide binding]; other site 290402004904 PYR/PP interface [polypeptide binding]; other site 290402004905 TPP binding site [chemical binding]; other site 290402004906 substrate binding site [chemical binding]; other site 290402004907 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 290402004908 Domain of unknown function; Region: EKR; smart00890 290402004909 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 290402004910 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 290402004911 TPP-binding site [chemical binding]; other site 290402004912 dimer interface [polypeptide binding]; other site 290402004913 Uncharacterized conserved protein [Function unknown]; Region: COG5663 290402004914 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 290402004915 GAF domain; Region: GAF; pfam01590 290402004916 PAS domain; Region: PAS; smart00091 290402004917 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 290402004918 Walker A motif; other site 290402004919 ATP binding site [chemical binding]; other site 290402004920 Walker B motif; other site 290402004921 arginine finger; other site 290402004922 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290402004923 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 290402004924 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 290402004925 putative NAD(P) binding site [chemical binding]; other site 290402004926 catalytic Zn binding site [ion binding]; other site 290402004927 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 290402004928 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 290402004929 FAD binding pocket [chemical binding]; other site 290402004930 FAD binding motif [chemical binding]; other site 290402004931 phosphate binding motif [ion binding]; other site 290402004932 beta-alpha-beta structure motif; other site 290402004933 NAD binding pocket [chemical binding]; other site 290402004934 Iron coordination center [ion binding]; other site 290402004935 putative oxidoreductase; Provisional; Region: PRK12831 290402004936 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290402004937 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402004938 Zn2+ binding site [ion binding]; other site 290402004939 Mg2+ binding site [ion binding]; other site 290402004940 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 290402004941 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 290402004942 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 290402004943 putative active site [active] 290402004944 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 290402004945 metal binding site [ion binding]; metal-binding site 290402004946 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402004947 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402004948 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 290402004949 dimer interface [polypeptide binding]; other site 290402004950 FMN binding site [chemical binding]; other site 290402004951 Transposase domain (DUF772); Region: DUF772; pfam05598 290402004952 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 290402004953 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 290402004954 methionine cluster; other site 290402004955 active site 290402004956 phosphorylation site [posttranslational modification] 290402004957 metal binding site [ion binding]; metal-binding site 290402004958 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 290402004959 active site 290402004960 P-loop; other site 290402004961 phosphorylation site [posttranslational modification] 290402004962 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 290402004963 beta-galactosidase; Region: BGL; TIGR03356 290402004964 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 290402004965 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 290402004966 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402004967 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402004968 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 290402004969 putative active site [active] 290402004970 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 290402004971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402004972 active site 290402004973 phosphorylation site [posttranslational modification] 290402004974 intermolecular recognition site; other site 290402004975 dimerization interface [polypeptide binding]; other site 290402004976 LytTr DNA-binding domain; Region: LytTR; smart00850 290402004977 hypothetical protein; Provisional; Region: PRK13665 290402004978 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 290402004979 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402004980 ATP binding site [chemical binding]; other site 290402004981 Mg2+ binding site [ion binding]; other site 290402004982 G-X-G motif; other site 290402004983 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 290402004984 Sterol carrier protein domain; Region: SCP2_2; pfam13530 290402004985 EamA-like transporter family; Region: EamA; pfam00892 290402004986 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 290402004987 AAA domain; Region: AAA_14; pfam13173 290402004988 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 290402004989 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290402004990 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290402004991 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290402004992 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402004993 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 290402004994 AAA ATPase domain; Region: AAA_16; pfam13191 290402004995 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 290402004996 Int/Topo IB signature motif; other site 290402004997 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402004998 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 290402004999 sequence-specific DNA binding site [nucleotide binding]; other site 290402005000 salt bridge; other site 290402005001 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 290402005002 active site 290402005003 metal binding site [ion binding]; metal-binding site 290402005004 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 290402005005 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 290402005006 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 290402005007 GGGtGRT protein; Region: GGGtGRT; pfam14057 290402005008 TfoX N-terminal domain; Region: TfoX_N; pfam04993 290402005009 SnoaL-like domain; Region: SnoaL_2; pfam12680 290402005010 Predicted transcriptional regulators [Transcription]; Region: COG1695 290402005011 Transcriptional regulator PadR-like family; Region: PadR; cl17335 290402005012 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 290402005013 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 290402005014 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 290402005015 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 290402005016 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 290402005017 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 290402005018 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 290402005019 Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains; Region: HGDH_LDH_like; cd12185 290402005020 putative ligand binding site [chemical binding]; other site 290402005021 putative NAD binding site [chemical binding]; other site 290402005022 catalytic site [active] 290402005023 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 290402005024 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 290402005025 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 290402005026 Uncharacterized conserved protein [Function unknown]; Region: COG2454 290402005027 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 290402005028 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290402005029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402005030 DNA-binding site [nucleotide binding]; DNA binding site 290402005031 FCD domain; Region: FCD; pfam07729 290402005032 Membrane transport protein; Region: Mem_trans; pfam03547 290402005033 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290402005034 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402005035 DNA-binding site [nucleotide binding]; DNA binding site 290402005036 FCD domain; Region: FCD; pfam07729 290402005037 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 290402005038 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 290402005039 catalytic residues [active] 290402005040 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 290402005041 active site 290402005042 zinc binding site [ion binding]; other site 290402005043 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 290402005044 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290402005045 Walker A/P-loop; other site 290402005046 ATP binding site [chemical binding]; other site 290402005047 Q-loop/lid; other site 290402005048 ABC transporter signature motif; other site 290402005049 Walker B; other site 290402005050 D-loop; other site 290402005051 H-loop/switch region; other site 290402005052 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 290402005053 thiS-thiF/thiG interaction site; other site 290402005054 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 290402005055 ThiS interaction site; other site 290402005056 putative active site [active] 290402005057 tetramer interface [polypeptide binding]; other site 290402005058 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 290402005059 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 290402005060 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402005061 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402005062 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 290402005063 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402005064 putative substrate translocation pore; other site 290402005065 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402005066 FOG: CBS domain [General function prediction only]; Region: COG0517 290402005067 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_23; cd04636 290402005068 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 290402005069 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 290402005070 Protein of unknown function, DUF488; Region: DUF488; pfam04343 290402005071 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290402005072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 290402005073 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 290402005074 FeS/SAM binding site; other site 290402005075 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 290402005076 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 290402005077 RuvA N terminal domain; Region: RuvA_N; pfam01330 290402005078 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 290402005079 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 290402005080 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 290402005081 Walker A motif; other site 290402005082 ATP binding site [chemical binding]; other site 290402005083 Walker B motif; other site 290402005084 arginine finger; other site 290402005085 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 290402005086 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 290402005087 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 290402005088 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 290402005089 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 290402005090 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 290402005091 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 290402005092 protein-export membrane protein SecD; Region: secD; TIGR01129 290402005093 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 290402005094 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 290402005095 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 290402005096 Protein export membrane protein; Region: SecD_SecF; pfam02355 290402005097 DHH family; Region: DHH; pfam01368 290402005098 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402005099 active site 290402005100 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 290402005101 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402005102 Zn2+ binding site [ion binding]; other site 290402005103 Mg2+ binding site [ion binding]; other site 290402005104 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 290402005105 synthetase active site [active] 290402005106 NTP binding site [chemical binding]; other site 290402005107 metal binding site [ion binding]; metal-binding site 290402005108 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 290402005109 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 290402005110 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 290402005111 dimerization interface [polypeptide binding]; other site 290402005112 putative tRNAtyr binding site [nucleotide binding]; other site 290402005113 putative active site [active] 290402005114 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402005115 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 290402005116 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 290402005117 FeS/SAM binding site; other site 290402005118 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 290402005119 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 290402005120 dimer interface [polypeptide binding]; other site 290402005121 motif 1; other site 290402005122 active site 290402005123 motif 2; other site 290402005124 motif 3; other site 290402005125 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 290402005126 anticodon binding site; other site 290402005127 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 290402005128 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 290402005129 dimer interface [polypeptide binding]; other site 290402005130 anticodon binding site; other site 290402005131 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 290402005132 homodimer interface [polypeptide binding]; other site 290402005133 motif 1; other site 290402005134 active site 290402005135 motif 2; other site 290402005136 GAD domain; Region: GAD; pfam02938 290402005137 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 290402005138 active site 290402005139 motif 3; other site 290402005140 Protein of unknown function (DUF554); Region: DUF554; pfam04474 290402005141 Protein of unknown function (DUF975); Region: DUF975; cl10504 290402005142 homoserine dehydrogenase; Provisional; Region: PRK06349 290402005143 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 290402005144 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 290402005145 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 290402005146 Uncharacterized conserved protein [Function unknown]; Region: COG3287 290402005147 FIST N domain; Region: FIST; pfam08495 290402005148 FIST C domain; Region: FIST_C; pfam10442 290402005149 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402005150 active site 290402005151 phosphorylation site [posttranslational modification] 290402005152 intermolecular recognition site; other site 290402005153 dimerization interface [polypeptide binding]; other site 290402005154 PAS domain S-box; Region: sensory_box; TIGR00229 290402005155 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 290402005156 putative active site [active] 290402005157 heme pocket [chemical binding]; other site 290402005158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402005159 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 290402005160 dimer interface [polypeptide binding]; other site 290402005161 phosphorylation site [posttranslational modification] 290402005162 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402005163 ATP binding site [chemical binding]; other site 290402005164 Mg2+ binding site [ion binding]; other site 290402005165 G-X-G motif; other site 290402005166 Probable zinc-binding domain; Region: zf-trcl; pfam13451 290402005167 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 290402005168 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 290402005169 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 290402005170 ATP-binding site [chemical binding]; other site 290402005171 Sugar specificity; other site 290402005172 Pyrimidine base specificity; other site 290402005173 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 290402005174 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 290402005175 motif II; other site 290402005176 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 290402005177 threonine dehydratase; Provisional; Region: PRK08198 290402005178 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 290402005179 tetramer interface [polypeptide binding]; other site 290402005180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402005181 catalytic residue [active] 290402005182 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 290402005183 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 290402005184 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 290402005185 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402005186 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402005187 ABC transporter; Region: ABC_tran_2; pfam12848 290402005188 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402005189 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290402005190 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290402005191 YtxC-like family; Region: YtxC; pfam08812 290402005192 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 290402005193 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 290402005194 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 290402005195 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 290402005196 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 290402005197 L21 binding site [polypeptide binding]; other site 290402005198 23S rRNA binding site [nucleotide binding]; other site 290402005199 L13 binding site [polypeptide binding]; other site 290402005200 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 290402005201 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 290402005202 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 290402005203 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 290402005204 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 290402005205 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 290402005206 dimer interface [polypeptide binding]; other site 290402005207 motif 1; other site 290402005208 active site 290402005209 motif 2; other site 290402005210 motif 3; other site 290402005211 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 290402005212 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 290402005213 putative tRNA-binding site [nucleotide binding]; other site 290402005214 B3/4 domain; Region: B3_4; pfam03483 290402005215 tRNA synthetase B5 domain; Region: B5; smart00874 290402005216 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 290402005217 dimer interface [polypeptide binding]; other site 290402005218 motif 1; other site 290402005219 motif 3; other site 290402005220 motif 2; other site 290402005221 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 290402005222 cell division protein MraZ; Reviewed; Region: PRK00326 290402005223 MraZ protein; Region: MraZ; pfam02381 290402005224 MraZ protein; Region: MraZ; pfam02381 290402005225 MraW methylase family; Region: Methyltransf_5; pfam01795 290402005226 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 290402005227 Cell division protein FtsL; Region: FtsL; cl11433 290402005228 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 290402005229 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 290402005230 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290402005231 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 290402005232 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 290402005233 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 290402005234 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 290402005235 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290402005236 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 290402005237 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 290402005238 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 290402005239 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290402005240 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290402005241 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290402005242 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 290402005243 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290402005244 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290402005245 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290402005246 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 290402005247 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 290402005248 Mg++ binding site [ion binding]; other site 290402005249 putative catalytic motif [active] 290402005250 putative substrate binding site [chemical binding]; other site 290402005251 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 290402005252 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 290402005253 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 290402005254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 290402005255 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 290402005256 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 290402005257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 290402005258 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 290402005259 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 290402005260 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290402005261 catalytic residue [active] 290402005262 Protein of unknown function (DUF552); Region: DUF552; cl00775 290402005263 YGGT family; Region: YGGT; pfam02325 290402005264 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 290402005265 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 290402005266 RNA binding surface [nucleotide binding]; other site 290402005267 DivIVA protein; Region: DivIVA; pfam05103 290402005268 DivIVA domain; Region: DivI1A_domain; TIGR03544 290402005269 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 290402005270 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 290402005271 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290402005272 ligand binding site [chemical binding]; other site 290402005273 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 290402005274 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 290402005275 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 290402005276 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 290402005277 RNA binding surface [nucleotide binding]; other site 290402005278 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 290402005279 active site 290402005280 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 290402005281 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402005282 active site 290402005283 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 290402005284 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 290402005285 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 290402005286 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402005287 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402005288 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 290402005289 putative active site [active] 290402005290 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 290402005291 Domain of unknown function (DUF814); Region: DUF814; pfam05670 290402005292 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 290402005293 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 290402005294 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 290402005295 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 290402005296 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402005297 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290402005298 Coenzyme A binding pocket [chemical binding]; other site 290402005299 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 290402005300 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 290402005301 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 290402005302 catalytic residues [active] 290402005303 catalytic nucleophile [active] 290402005304 Presynaptic Site I dimer interface [polypeptide binding]; other site 290402005305 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 290402005306 Synaptic Flat tetramer interface [polypeptide binding]; other site 290402005307 Synaptic Site I dimer interface [polypeptide binding]; other site 290402005308 DNA binding site [nucleotide binding] 290402005309 Recombinase; Region: Recombinase; pfam07508 290402005310 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 290402005311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 290402005312 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 290402005313 Interdomain contacts; other site 290402005314 Cytokine receptor motif; other site 290402005315 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 290402005316 Interdomain contacts; other site 290402005317 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 290402005318 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 290402005319 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290402005320 Ion channel; Region: Ion_trans_2; pfam07885 290402005321 SEC-C motif; Region: SEC-C; pfam02810 290402005322 Histidine kinase-like ATPases; This family includes several ATP-binding 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 290402005323 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402005324 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 290402005325 non-specific DNA binding site [nucleotide binding]; other site 290402005326 salt bridge; other site 290402005327 sequence-specific DNA binding site [nucleotide binding]; other site 290402005328 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 290402005329 non-specific DNA binding site [nucleotide binding]; other site 290402005330 salt bridge; other site 290402005331 sequence-specific DNA binding site [nucleotide binding]; other site 290402005332 Helix-turn-helix domain; Region: HTH_31; pfam13560 290402005333 AAA domain; Region: AAA_23; pfam13476 290402005334 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402005335 Walker A/P-loop; other site 290402005336 ATP binding site [chemical binding]; other site 290402005337 RecT family; Region: RecT; pfam03837 290402005338 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 290402005339 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 290402005340 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 290402005341 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 290402005342 SH3 domain-containing protein; Provisional; Region: PRK10884 290402005343 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 290402005344 ParB-like nuclease domain; Region: ParBc; pfam02195 290402005345 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 290402005346 DNA methylase; Region: N6_N4_Mtase; pfam01555 290402005347 Uncharacterized conserved protein [Function unknown]; Region: COG5484 290402005348 Phage terminase small subunit; Region: Phage_terminase; pfam10668 290402005349 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 290402005350 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 290402005351 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 290402005352 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 290402005353 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 290402005354 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 290402005355 Phage XkdN-like protein; Region: XkdN; pfam08890 290402005356 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 290402005357 Bacterial SH3 domain; Region: SH3_3; pfam08239 290402005358 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 290402005359 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 290402005360 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 290402005361 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 290402005362 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 290402005363 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 290402005364 Domain of unknown function DUF11; Region: DUF11; cl17728 290402005365 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 290402005366 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 290402005367 Lyc muramidase is an autolytic lysozyme (autolysin) from Clostridium acetobutylicum encoded by the lyc gene. Lyc has a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan...; Region: GH25_Lyc-like; cd06525 290402005368 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 290402005369 active site 290402005370 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 290402005371 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290402005372 substrate binding pocket [chemical binding]; other site 290402005373 membrane-bound complex binding site; other site 290402005374 hinge residues; other site 290402005375 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402005376 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402005377 ligand binding site [chemical binding]; other site 290402005378 calcium binding site [ion binding]; other site 290402005379 HTH-like domain; Region: HTH_21; pfam13276 290402005380 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402005381 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 290402005382 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402005383 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402005384 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 290402005385 sequence-specific DNA binding site [nucleotide binding]; other site 290402005386 salt bridge; other site 290402005387 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 290402005388 MgtC family; Region: MgtC; pfam02308 290402005389 Paired Box domain; Region: PAX; smart00351 290402005390 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 290402005391 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 290402005392 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 290402005393 elongation factor P; Validated; Region: PRK00529 290402005394 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 290402005395 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 290402005396 RNA binding site [nucleotide binding]; other site 290402005397 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 290402005398 RNA binding site [nucleotide binding]; other site 290402005399 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 290402005400 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 290402005401 Walker A motif; other site 290402005402 ATP binding site [chemical binding]; other site 290402005403 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 290402005404 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 290402005405 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 290402005406 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 290402005407 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 290402005408 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 290402005409 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 290402005410 Asp23 family; Region: Asp23; pfam03780 290402005411 transcription antitermination factor NusB; Region: nusB; TIGR01951 290402005412 putative RNA binding site [nucleotide binding]; other site 290402005413 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14172 290402005414 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 290402005415 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 290402005416 homodimer interface [polypeptide binding]; other site 290402005417 NADP binding site [chemical binding]; other site 290402005418 substrate binding site [chemical binding]; other site 290402005419 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 290402005420 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 290402005421 generic binding surface II; other site 290402005422 generic binding surface I; other site 290402005423 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 290402005424 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 290402005425 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 290402005426 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 290402005427 substrate binding pocket [chemical binding]; other site 290402005428 chain length determination region; other site 290402005429 substrate-Mg2+ binding site; other site 290402005430 catalytic residues [active] 290402005431 aspartate-rich region 1; other site 290402005432 active site lid residues [active] 290402005433 aspartate-rich region 2; other site 290402005434 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 290402005435 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 290402005436 TPP-binding site; other site 290402005437 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 290402005438 PYR/PP interface [polypeptide binding]; other site 290402005439 dimer interface [polypeptide binding]; other site 290402005440 TPP binding site [chemical binding]; other site 290402005441 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290402005442 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 290402005443 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 290402005444 RNA binding surface [nucleotide binding]; other site 290402005445 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 290402005446 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 290402005447 ATP-NAD kinase; Region: NAD_kinase; pfam01513 290402005448 arginine repressor; Provisional; Region: argR; PRK00441 290402005449 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 290402005450 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 290402005451 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 290402005452 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 290402005453 Walker A/P-loop; other site 290402005454 ATP binding site [chemical binding]; other site 290402005455 Q-loop/lid; other site 290402005456 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 290402005457 Q-loop/lid; other site 290402005458 ABC transporter signature motif; other site 290402005459 Walker B; other site 290402005460 D-loop; other site 290402005461 H-loop/switch region; other site 290402005462 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 290402005463 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 290402005464 protein binding site [polypeptide binding]; other site 290402005465 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 290402005466 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 290402005467 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402005468 active site 290402005469 phosphorylation site [posttranslational modification] 290402005470 intermolecular recognition site; other site 290402005471 dimerization interface [polypeptide binding]; other site 290402005472 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 290402005473 Hemerythrin; Region: Hemerythrin; cd12107 290402005474 Fe binding site [ion binding]; other site 290402005475 uracil transporter; Provisional; Region: PRK10720 290402005476 TQXA domain; Region: TQXA_dom; TIGR03934 290402005477 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 290402005478 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 290402005479 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 290402005480 catalytic core [active] 290402005481 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 290402005482 putative active site [active] 290402005483 putative metal binding site [ion binding]; other site 290402005484 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 290402005485 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 290402005486 putative active site [active] 290402005487 metal binding site [ion binding]; metal-binding site 290402005488 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402005489 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402005490 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402005491 dimer interface [polypeptide binding]; other site 290402005492 putative CheW interface [polypeptide binding]; other site 290402005493 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 290402005494 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 290402005495 Ligand binding site; other site 290402005496 Putative Catalytic site; other site 290402005497 DXD motif; other site 290402005498 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 290402005499 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 290402005500 Predicted integral membrane protein [Function unknown]; Region: COG5542 290402005501 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 290402005502 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 290402005503 active site 290402005504 tetramer interface; other site 290402005505 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 290402005506 glycosyltransferase, MGT family; Region: MGT; TIGR01426 290402005507 active site 290402005508 TDP-binding site; other site 290402005509 acceptor substrate-binding pocket; other site 290402005510 homodimer interface [polypeptide binding]; other site 290402005511 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_34; cd04693 290402005512 nudix motif; other site 290402005513 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402005514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402005515 active site 290402005516 phosphorylation site [posttranslational modification] 290402005517 intermolecular recognition site; other site 290402005518 dimerization interface [polypeptide binding]; other site 290402005519 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 290402005520 DNA binding site [nucleotide binding] 290402005521 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402005522 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 290402005523 dimerization interface [polypeptide binding]; other site 290402005524 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 290402005525 dimer interface [polypeptide binding]; other site 290402005526 phosphorylation site [posttranslational modification] 290402005527 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402005528 ATP binding site [chemical binding]; other site 290402005529 Mg2+ binding site [ion binding]; other site 290402005530 G-X-G motif; other site 290402005531 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 290402005532 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402005533 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402005534 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402005535 Protein of unknown function (DUF328); Region: DUF328; pfam03883 290402005536 ribonuclease Z; Reviewed; Region: PRK00055 290402005537 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 290402005538 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 290402005539 putative acyl-acceptor binding pocket; other site 290402005540 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 290402005541 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 290402005542 G1 box; other site 290402005543 putative GEF interaction site [polypeptide binding]; other site 290402005544 GTP/Mg2+ binding site [chemical binding]; other site 290402005545 Switch I region; other site 290402005546 G2 box; other site 290402005547 G3 box; other site 290402005548 Switch II region; other site 290402005549 G4 box; other site 290402005550 G5 box; other site 290402005551 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 290402005552 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 290402005553 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 290402005554 Protein of unknown function DUF45; Region: DUF45; pfam01863 290402005555 Protein of unknown function, DUF606; Region: DUF606; pfam04657 290402005556 Protein of unknown function, DUF606; Region: DUF606; pfam04657 290402005557 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 290402005558 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 290402005559 ligand binding site [chemical binding]; other site 290402005560 flexible hinge region; other site 290402005561 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 290402005562 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 290402005563 DEAD-like helicases superfamily; Region: DEXDc; smart00487 290402005564 ATP binding site [chemical binding]; other site 290402005565 Mg++ binding site [ion binding]; other site 290402005566 motif III; other site 290402005567 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 290402005568 nucleotide binding region [chemical binding]; other site 290402005569 ATP-binding site [chemical binding]; other site 290402005570 Predicted transcriptional regulator [Transcription]; Region: COG1959 290402005571 Transcriptional regulator; Region: Rrf2; pfam02082 290402005572 anthranilate synthase component I; Provisional; Region: PRK13570 290402005573 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 290402005574 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 290402005575 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 290402005576 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 290402005577 glutamine binding [chemical binding]; other site 290402005578 catalytic triad [active] 290402005579 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 290402005580 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 290402005581 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 290402005582 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 290402005583 active site 290402005584 ribulose/triose binding site [chemical binding]; other site 290402005585 phosphate binding site [ion binding]; other site 290402005586 substrate (anthranilate) binding pocket [chemical binding]; other site 290402005587 product (indole) binding pocket [chemical binding]; other site 290402005588 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 290402005589 active site 290402005590 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 290402005591 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 290402005592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402005593 catalytic residue [active] 290402005594 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 290402005595 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 290402005596 substrate binding site [chemical binding]; other site 290402005597 active site 290402005598 catalytic residues [active] 290402005599 heterodimer interface [polypeptide binding]; other site 290402005600 Protein of unknown function (DUF1284); Region: DUF1284; pfam06935 290402005601 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 290402005602 catalytic core [active] 290402005603 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 290402005604 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290402005605 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 290402005606 TPR repeat; Region: TPR_11; pfam13414 290402005607 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 290402005608 binding surface 290402005609 TPR motif; other site 290402005610 Tetratricopeptide repeat; Region: TPR_12; pfam13424 290402005611 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 290402005612 binding surface 290402005613 TPR motif; other site 290402005614 TPR repeat; Region: TPR_11; pfam13414 290402005615 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 290402005616 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 290402005617 putative ligand binding site [chemical binding]; other site 290402005618 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402005619 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 290402005620 TM-ABC transporter signature motif; other site 290402005621 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 290402005622 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 290402005623 TM-ABC transporter signature motif; other site 290402005624 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 290402005625 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 290402005626 Walker A/P-loop; other site 290402005627 ATP binding site [chemical binding]; other site 290402005628 Q-loop/lid; other site 290402005629 ABC transporter signature motif; other site 290402005630 Walker B; other site 290402005631 D-loop; other site 290402005632 H-loop/switch region; other site 290402005633 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 290402005634 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 290402005635 Walker A/P-loop; other site 290402005636 ATP binding site [chemical binding]; other site 290402005637 Q-loop/lid; other site 290402005638 ABC transporter signature motif; other site 290402005639 Walker B; other site 290402005640 D-loop; other site 290402005641 H-loop/switch region; other site 290402005642 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 290402005643 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 290402005644 putative ligand binding site [chemical binding]; other site 290402005645 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 290402005646 PAS domain; Region: PAS; smart00091 290402005647 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402005648 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402005649 metal binding site [ion binding]; metal-binding site 290402005650 active site 290402005651 I-site; other site 290402005652 enterobactin exporter EntS; Provisional; Region: PRK10489 290402005653 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402005654 putative substrate translocation pore; other site 290402005655 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290402005656 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 290402005657 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 290402005658 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290402005659 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 290402005660 motif II; other site 290402005661 SLBB domain; Region: SLBB; pfam10531 290402005662 4Fe-4S binding domain; Region: Fer4; pfam00037 290402005663 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 290402005664 4Fe-4S binding domain; Region: Fer4; pfam00037 290402005665 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 290402005666 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 290402005667 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 290402005668 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 290402005669 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 290402005670 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 290402005671 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290402005672 putative active site [active] 290402005673 putative metal binding site [ion binding]; other site 290402005674 Membrane protein of unknown function; Region: DUF360; pfam04020 290402005675 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 290402005676 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290402005677 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 290402005678 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 290402005679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402005680 homodimer interface [polypeptide binding]; other site 290402005681 catalytic residue [active] 290402005682 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 290402005683 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290402005684 active site 290402005685 HIGH motif; other site 290402005686 nucleotide binding site [chemical binding]; other site 290402005687 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 290402005688 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 290402005689 active site 290402005690 KMSKS motif; other site 290402005691 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 290402005692 tRNA binding surface [nucleotide binding]; other site 290402005693 anticodon binding site; other site 290402005694 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 290402005695 Integral membrane protein TerC family; Region: TerC; cl10468 290402005696 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 290402005697 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290402005698 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290402005699 HIRAN domain; Region: HIRAN; pfam08797 290402005700 TSCPD domain; Region: TSCPD; cl14834 290402005701 Uncharacterized conserved protein [Function unknown]; Region: COG3391 290402005702 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 290402005703 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 290402005704 Predicted transcriptional regulator [Transcription]; Region: COG3432 290402005705 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 290402005706 NodB motif; other site 290402005707 active site 290402005708 catalytic site [active] 290402005709 metal binding site [ion binding]; metal-binding site 290402005710 single-stranded DNA-binding protein; Provisional; Region: PRK05813 290402005711 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 290402005712 dimer interface [polypeptide binding]; other site 290402005713 ssDNA binding site [nucleotide binding]; other site 290402005714 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402005715 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 290402005716 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 290402005717 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 290402005718 active site 290402005719 trimer interface [polypeptide binding]; other site 290402005720 substrate binding site [chemical binding]; other site 290402005721 CoA binding site [chemical binding]; other site 290402005722 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 290402005723 putative CoA binding site [chemical binding]; other site 290402005724 putative trimer interface [polypeptide binding]; other site 290402005725 aminotransferase A; Validated; Region: PRK07683 290402005726 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 290402005727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402005728 homodimer interface [polypeptide binding]; other site 290402005729 catalytic residue [active] 290402005730 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 290402005731 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 290402005732 active site 290402005733 DNA binding site [nucleotide binding] 290402005734 dihydrodipicolinate reductase; Provisional; Region: PRK00048 290402005735 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 290402005736 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 290402005737 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 290402005738 dihydrodipicolinate synthase; Region: dapA; TIGR00674 290402005739 dimer interface [polypeptide binding]; other site 290402005740 active site 290402005741 catalytic residue [active] 290402005742 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 290402005743 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 290402005744 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 290402005745 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290402005746 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 290402005747 S-adenosylmethionine binding site [chemical binding]; other site 290402005748 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 290402005749 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 290402005750 dimerization interface [polypeptide binding]; other site 290402005751 domain crossover interface; other site 290402005752 redox-dependent activation switch; other site 290402005753 Uncharacterized conserved protein [Function unknown]; Region: COG1434 290402005754 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 290402005755 putative active site [active] 290402005756 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 290402005757 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; cl09940 290402005758 RNA binding surface [nucleotide binding]; other site 290402005759 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 290402005760 active site 290402005761 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402005762 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 290402005763 dimerization interface [polypeptide binding]; other site 290402005764 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 290402005765 dimer interface [polypeptide binding]; other site 290402005766 phosphorylation site [posttranslational modification] 290402005767 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402005768 ATP binding site [chemical binding]; other site 290402005769 Mg2+ binding site [ion binding]; other site 290402005770 G-X-G motif; other site 290402005771 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402005772 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402005773 active site 290402005774 phosphorylation site [posttranslational modification] 290402005775 intermolecular recognition site; other site 290402005776 dimerization interface [polypeptide binding]; other site 290402005777 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 290402005778 DNA binding site [nucleotide binding] 290402005779 Outer membrane efflux protein; Region: OEP; pfam02321 290402005780 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 290402005781 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402005782 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402005783 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290402005784 Walker A/P-loop; other site 290402005785 ATP binding site [chemical binding]; other site 290402005786 Q-loop/lid; other site 290402005787 ABC transporter signature motif; other site 290402005788 Walker B; other site 290402005789 D-loop; other site 290402005790 H-loop/switch region; other site 290402005791 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290402005792 FtsX-like permease family; Region: FtsX; pfam02687 290402005793 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 290402005794 Uncharacterized conserved protein [Function unknown]; Region: COG0398 290402005795 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 290402005796 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 290402005797 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 290402005798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402005799 homodimer interface [polypeptide binding]; other site 290402005800 catalytic residue [active] 290402005801 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 290402005802 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 290402005803 putative oligomer interface [polypeptide binding]; other site 290402005804 putative active site [active] 290402005805 metal binding site [ion binding]; metal-binding site 290402005806 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 290402005807 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 290402005808 motif II; other site 290402005809 Leucine rich repeat; Region: LRR_8; pfam13855 290402005810 Leucine-rich repeats, typical (most populated) subfamily; Region: LRR_TYP; cl15310 290402005811 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402005812 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402005813 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 290402005814 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 290402005815 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 290402005816 Predicted permeases [General function prediction only]; Region: COG0701 290402005817 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 290402005818 helicase 45; Provisional; Region: PTZ00424 290402005819 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 290402005820 ATP binding site [chemical binding]; other site 290402005821 putative Mg++ binding site [ion binding]; other site 290402005822 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 290402005823 nucleotide binding region [chemical binding]; other site 290402005824 ATP-binding site [chemical binding]; other site 290402005825 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 290402005826 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 290402005827 ATP binding site [chemical binding]; other site 290402005828 Mg++ binding site [ion binding]; other site 290402005829 motif III; other site 290402005830 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 290402005831 nucleotide binding region [chemical binding]; other site 290402005832 ATP-binding site [chemical binding]; other site 290402005833 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 290402005834 methionine aminopeptidase; Provisional; Region: PRK12318 290402005835 SEC-C motif; Region: SEC-C; pfam02810 290402005836 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 290402005837 active site 290402005838 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 290402005839 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 290402005840 ATP binding site [chemical binding]; other site 290402005841 putative Mg++ binding site [ion binding]; other site 290402005842 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 290402005843 nucleotide binding region [chemical binding]; other site 290402005844 ATP-binding site [chemical binding]; other site 290402005845 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 290402005846 HRDC domain; Region: HRDC; pfam00570 290402005847 HRDC domain; Region: HRDC; pfam00570 290402005848 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 290402005849 HSP70 interaction site [polypeptide binding]; other site 290402005850 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 290402005851 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402005852 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 290402005853 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 290402005854 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 290402005855 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 290402005856 FAD binding site [chemical binding]; other site 290402005857 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 290402005858 catalytic core [active] 290402005859 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 290402005860 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290402005861 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402005862 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402005863 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402005864 DNA binding site [nucleotide binding] 290402005865 domain linker motif; other site 290402005866 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 290402005867 dimerization interface [polypeptide binding]; other site 290402005868 ligand binding site [chemical binding]; other site 290402005869 Glucuronate isomerase; Region: UxaC; pfam02614 290402005870 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 290402005871 altronate oxidoreductase; Provisional; Region: PRK03643 290402005872 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 290402005873 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 290402005874 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 290402005875 HIT family signature motif; other site 290402005876 catalytic residue [active] 290402005877 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 290402005878 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402005879 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 290402005880 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 290402005881 active site 290402005882 intersubunit interface [polypeptide binding]; other site 290402005883 catalytic residue [active] 290402005884 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290402005885 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 290402005886 substrate binding site [chemical binding]; other site 290402005887 ATP binding site [chemical binding]; other site 290402005888 altronate oxidoreductase; Provisional; Region: PRK03643 290402005889 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 290402005890 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 290402005891 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 290402005892 galactarate dehydratase; Region: galactar-dH20; TIGR03248 290402005893 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 290402005894 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 290402005895 active site 290402005896 phosphorylation site [posttranslational modification] 290402005897 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 290402005898 substrate binding site [chemical binding]; other site 290402005899 ATP binding site [chemical binding]; other site 290402005900 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 290402005901 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 290402005902 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290402005903 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 290402005904 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 290402005905 putative substrate binding site [chemical binding]; other site 290402005906 putative ATP binding site [chemical binding]; other site 290402005907 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 290402005908 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 290402005909 active site 290402005910 phosphorylation site [posttranslational modification] 290402005911 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 290402005912 active site 290402005913 P-loop; other site 290402005914 phosphorylation site [posttranslational modification] 290402005915 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 290402005916 Hemerythrin-like domain; Region: Hr-like; cd12108 290402005917 Fe binding site [ion binding]; other site 290402005918 Rrf2 family protein; Region: rrf2_super; TIGR00738 290402005919 Transcriptional regulator; Region: Rrf2; pfam02082 290402005920 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 290402005921 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 290402005922 Walker A/P-loop; other site 290402005923 ATP binding site [chemical binding]; other site 290402005924 Q-loop/lid; other site 290402005925 ABC transporter signature motif; other site 290402005926 Walker B; other site 290402005927 D-loop; other site 290402005928 H-loop/switch region; other site 290402005929 FeS assembly protein SufB; Region: sufB; TIGR01980 290402005930 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 290402005931 FeS assembly protein SufD; Region: sufD; TIGR01981 290402005932 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 290402005933 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 290402005934 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 290402005935 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290402005936 catalytic residue [active] 290402005937 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 290402005938 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 290402005939 trimerization site [polypeptide binding]; other site 290402005940 active site 290402005941 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 290402005942 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 290402005943 dimer interface [polypeptide binding]; other site 290402005944 PYR/PP interface [polypeptide binding]; other site 290402005945 TPP binding site [chemical binding]; other site 290402005946 substrate binding site [chemical binding]; other site 290402005947 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 290402005948 Domain of unknown function; Region: EKR; smart00890 290402005949 4Fe-4S binding domain; Region: Fer4_6; pfam12837 290402005950 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 290402005951 TPP-binding site [chemical binding]; other site 290402005952 dimer interface [polypeptide binding]; other site 290402005953 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 290402005954 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 290402005955 active site 290402005956 catalytic triad [active] 290402005957 Protein of unknown function (DUF342); Region: DUF342; pfam03961 290402005958 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 290402005959 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 290402005960 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 290402005961 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290402005962 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290402005963 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290402005964 EDD domain protein, DegV family; Region: DegV; TIGR00762 290402005965 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 290402005966 short chain dehydrogenase; Provisional; Region: PRK06701 290402005967 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 290402005968 NAD binding site [chemical binding]; other site 290402005969 metal binding site [ion binding]; metal-binding site 290402005970 active site 290402005971 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 290402005972 dimerization interface [polypeptide binding]; other site 290402005973 putative DNA binding site [nucleotide binding]; other site 290402005974 putative Zn2+ binding site [ion binding]; other site 290402005975 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290402005976 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 290402005977 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 290402005978 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 290402005979 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290402005980 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 290402005981 Uncharacterized conserved protein [Function unknown]; Region: COG2966 290402005982 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 290402005983 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 290402005984 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 290402005985 dimer interface [polypeptide binding]; other site 290402005986 active site 290402005987 glycine-pyridoxal phosphate binding site [chemical binding]; other site 290402005988 folate binding site [chemical binding]; other site 290402005989 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 290402005990 catalytic triad [active] 290402005991 conserved cis-peptide bond; other site 290402005992 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 290402005993 DNA topoisomerase III; Provisional; Region: PRK07726 290402005994 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 290402005995 active site 290402005996 putative interdomain interaction site [polypeptide binding]; other site 290402005997 putative metal-binding site [ion binding]; other site 290402005998 putative nucleotide binding site [chemical binding]; other site 290402005999 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 290402006000 domain I; other site 290402006001 DNA binding groove [nucleotide binding] 290402006002 phosphate binding site [ion binding]; other site 290402006003 domain II; other site 290402006004 domain III; other site 290402006005 nucleotide binding site [chemical binding]; other site 290402006006 catalytic site [active] 290402006007 domain IV; other site 290402006008 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 290402006009 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 290402006010 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 290402006011 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 290402006012 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 290402006013 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 290402006014 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 290402006015 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 290402006016 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 290402006017 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 290402006018 hypothetical protein; Provisional; Region: PRK05802 290402006019 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 290402006020 FAD binding pocket [chemical binding]; other site 290402006021 FAD binding motif [chemical binding]; other site 290402006022 phosphate binding motif [ion binding]; other site 290402006023 beta-alpha-beta structure motif; other site 290402006024 NAD binding pocket [chemical binding]; other site 290402006025 Iron coordination center [ion binding]; other site 290402006026 Glucose inhibited division protein A; Region: GIDA; pfam01134 290402006027 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290402006028 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 290402006029 YmaF family; Region: YmaF; pfam12788 290402006030 inner membrane transporter YjeM; Provisional; Region: PRK15238 290402006031 Predicted transcriptional regulators [Transcription]; Region: COG1725 290402006032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402006033 DNA-binding site [nucleotide binding]; DNA binding site 290402006034 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290402006035 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290402006036 Walker A/P-loop; other site 290402006037 ATP binding site [chemical binding]; other site 290402006038 Q-loop/lid; other site 290402006039 ABC transporter signature motif; other site 290402006040 Walker B; other site 290402006041 D-loop; other site 290402006042 H-loop/switch region; other site 290402006043 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 290402006044 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 290402006045 RNA binding surface [nucleotide binding]; other site 290402006046 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 290402006047 active site 290402006048 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402006049 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402006050 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 290402006051 putative active site [active] 290402006052 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 290402006053 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 290402006054 active site 290402006055 NTP binding site [chemical binding]; other site 290402006056 metal binding triad [ion binding]; metal-binding site 290402006057 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 290402006058 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 290402006059 FIST N domain; Region: FIST; pfam08495 290402006060 FIST C domain; Region: FIST_C; pfam10442 290402006061 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402006062 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402006063 dimer interface [polypeptide binding]; other site 290402006064 putative CheW interface [polypeptide binding]; other site 290402006065 Late competence development protein ComFB; Region: ComFB; pfam10719 290402006066 Repair protein; Region: Repair_PSII; pfam04536 290402006067 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 290402006068 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u1; cd12826 290402006069 Cl binding site [ion binding]; other site 290402006070 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 290402006071 oligomer interface [polypeptide binding]; other site 290402006072 calcium/proton exchanger (cax); Region: cax; TIGR00378 290402006073 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 290402006074 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 290402006075 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290402006076 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 290402006077 dimer interface [polypeptide binding]; other site 290402006078 active site 290402006079 metal binding site [ion binding]; metal-binding site 290402006080 glutathione binding site [chemical binding]; other site 290402006081 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 290402006082 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 290402006083 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 290402006084 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290402006085 Iron only hydrogenase large subunit, C-terminal domain [General function prediction only]; Region: COG4624 290402006086 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 290402006087 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 290402006088 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 290402006089 intersubunit interface [polypeptide binding]; other site 290402006090 active site 290402006091 zinc binding site [ion binding]; other site 290402006092 Na+ binding site [ion binding]; other site 290402006093 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 290402006094 Probable zinc-binding domain; Region: zf-trcl; pfam13451 290402006095 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 290402006096 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290402006097 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 290402006098 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 290402006099 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290402006100 BioY family; Region: BioY; pfam02632 290402006101 biotin synthase; Region: bioB; TIGR00433 290402006102 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 290402006103 FeS/SAM binding site; other site 290402006104 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 290402006105 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 290402006106 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 290402006107 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 290402006108 putative active site [active] 290402006109 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 290402006110 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402006111 active site turn [active] 290402006112 phosphorylation site [posttranslational modification] 290402006113 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402006114 Uncharacterized conserved protein [Function unknown]; Region: COG3589 290402006115 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 290402006116 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402006117 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402006118 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 290402006119 putative active site [active] 290402006120 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 290402006121 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 290402006122 putative active site; other site 290402006123 catalytic triad [active] 290402006124 putative dimer interface [polypeptide binding]; other site 290402006125 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 290402006126 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 290402006127 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402006128 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402006129 putative substrate translocation pore; other site 290402006130 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 290402006131 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 290402006132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402006133 homodimer interface [polypeptide binding]; other site 290402006134 catalytic residue [active] 290402006135 Predicted transcriptional regulators [Transcription]; Region: COG1695 290402006136 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 290402006137 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 290402006138 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 290402006139 Enoate reductase (ER)-like FMN-binding domain. Enoate reductase catalyzes the NADH-dependent reduction of carbon-carbon double bonds of several molecules, including nonactivated 2-enoates, alpha,beta-unsaturated aldehydes, cyclic ketones, and...; Region: ER_like_FMN; cd02931 290402006140 putative active site [active] 290402006141 putative FMN binding site [chemical binding]; other site 290402006142 putative substrate binding site [chemical binding]; other site 290402006143 putative catalytic residue [active] 290402006144 putative 4Fe-4S cluster binding site [ion binding]; other site 290402006145 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 290402006146 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402006147 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 290402006148 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 290402006149 Catalytic domain of Protein Kinases; Region: PKc; cd00180 290402006150 active site 290402006151 ATP binding site [chemical binding]; other site 290402006152 substrate binding site [chemical binding]; other site 290402006153 activation loop (A-loop); other site 290402006154 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 290402006155 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 290402006156 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 290402006157 dimer interface [polypeptide binding]; other site 290402006158 active site 290402006159 metal binding site [ion binding]; metal-binding site 290402006160 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 290402006161 Glucose inhibited division protein A; Region: GIDA; pfam01134 290402006162 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 290402006163 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 290402006164 hypothetical protein; Provisional; Region: PRK06062 290402006165 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 290402006166 inhibitor-cofactor binding pocket; inhibition site 290402006167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402006168 catalytic residue [active] 290402006169 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 290402006170 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 290402006171 putative active site [active] 290402006172 metal binding site [ion binding]; metal-binding site 290402006173 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290402006174 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290402006175 Walker A/P-loop; other site 290402006176 ATP binding site [chemical binding]; other site 290402006177 Q-loop/lid; other site 290402006178 ABC transporter signature motif; other site 290402006179 Walker B; other site 290402006180 D-loop; other site 290402006181 H-loop/switch region; other site 290402006182 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290402006183 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 290402006184 dimer interface [polypeptide binding]; other site 290402006185 conserved gate region; other site 290402006186 putative PBP binding loops; other site 290402006187 ABC-ATPase subunit interface; other site 290402006188 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290402006189 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 290402006190 NMT1/THI5 like; Region: NMT1; pfam09084 290402006191 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 290402006192 phenylhydantoinase; Validated; Region: PRK08323 290402006193 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 290402006194 tetramer interface [polypeptide binding]; other site 290402006195 active site 290402006196 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 290402006197 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 290402006198 homodimer interface [polypeptide binding]; other site 290402006199 active site 290402006200 FMN binding site [chemical binding]; other site 290402006201 substrate binding site [chemical binding]; other site 290402006202 allantoate amidohydrolase; Reviewed; Region: PRK09290 290402006203 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 290402006204 active site 290402006205 metal binding site [ion binding]; metal-binding site 290402006206 dimer interface [polypeptide binding]; other site 290402006207 FOG: CBS domain [General function prediction only]; Region: COG0517 290402006208 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_9; cd04622 290402006209 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 290402006210 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 290402006211 putative ligand binding site [chemical binding]; other site 290402006212 putative NAD binding site [chemical binding]; other site 290402006213 catalytic site [active] 290402006214 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 290402006215 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 290402006216 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; pfam09582 290402006217 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 290402006218 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 290402006219 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 290402006220 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 290402006221 NAD(P) binding site [chemical binding]; other site 290402006222 catalytic residues [active] 290402006223 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 290402006224 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402006225 putative substrate translocation pore; other site 290402006226 MarR family; Region: MarR_2; pfam12802 290402006227 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402006228 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 290402006229 dinuclear metal binding motif [ion binding]; other site 290402006230 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 290402006231 active site 290402006232 Flavin Reductases; Region: FlaRed; cl00801 290402006233 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402006234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402006235 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 290402006236 dimerization interface [polypeptide binding]; other site 290402006237 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 290402006238 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 290402006239 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 290402006240 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 290402006241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290402006242 NAD(P) binding site [chemical binding]; other site 290402006243 active site 290402006244 Integral membrane protein DUF95; Region: DUF95; cl00572 290402006245 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 290402006246 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 290402006247 active site 290402006248 DNA binding site [nucleotide binding] 290402006249 Int/Topo IB signature motif; other site 290402006250 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 290402006251 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 290402006252 NodB motif; other site 290402006253 active site 290402006254 catalytic site [active] 290402006255 Zn binding site [ion binding]; other site 290402006256 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402006257 Walker A/P-loop; other site 290402006258 ATP binding site [chemical binding]; other site 290402006259 ABC transporter; Region: ABC_tran; pfam00005 290402006260 Q-loop/lid; other site 290402006261 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 290402006262 ABC transporter signature motif; other site 290402006263 Walker B; other site 290402006264 D-loop; other site 290402006265 H-loop/switch region; other site 290402006266 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 290402006267 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 290402006268 dimer interface [polypeptide binding]; other site 290402006269 conserved gate region; other site 290402006270 putative PBP binding loops; other site 290402006271 ABC-ATPase subunit interface; other site 290402006272 peptidase; Reviewed; Region: PRK13004 290402006273 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 290402006274 putative metal binding site [ion binding]; other site 290402006275 putative dimer interface [polypeptide binding]; other site 290402006276 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 290402006277 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 290402006278 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 290402006279 carbamate kinase; Reviewed; Region: PRK12686 290402006280 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 290402006281 putative substrate binding site [chemical binding]; other site 290402006282 nucleotide binding site [chemical binding]; other site 290402006283 nucleotide binding site [chemical binding]; other site 290402006284 homodimer interface [polypeptide binding]; other site 290402006285 phenylhydantoinase; Validated; Region: PRK08323 290402006286 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 290402006287 tetramer interface [polypeptide binding]; other site 290402006288 active site 290402006289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 290402006290 YheO-like PAS domain; Region: PAS_6; pfam08348 290402006291 HTH domain; Region: HTH_22; pfam13309 290402006292 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 290402006293 guanine deaminase; Region: guan_deamin; TIGR02967 290402006294 active site 290402006295 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 290402006296 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290402006297 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 290402006298 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 290402006299 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 290402006300 active site 290402006301 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 290402006302 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402006303 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402006304 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 290402006305 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; cd00640 290402006306 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290402006307 catalytic residue [active] 290402006308 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 290402006309 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 290402006310 active site 290402006311 putative substrate binding pocket [chemical binding]; other site 290402006312 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 290402006313 homotrimer interaction site [polypeptide binding]; other site 290402006314 putative active site [active] 290402006315 XdhC Rossmann domain; Region: XdhC_C; pfam13478 290402006316 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 290402006317 xanthine permease; Region: pbuX; TIGR03173 290402006318 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 290402006319 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 290402006320 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 290402006321 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 290402006322 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290402006323 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 290402006324 Ligand binding site; other site 290402006325 metal-binding site 290402006326 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 290402006327 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 290402006328 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290402006329 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 290402006330 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 290402006331 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 290402006332 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 290402006333 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 290402006334 Ligand binding site; other site 290402006335 metal-binding site 290402006336 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 290402006337 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 290402006338 putative MPT binding site; other site 290402006339 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 290402006340 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 290402006341 FeS/SAM binding site; other site 290402006342 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 290402006343 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 290402006344 trimer interface [polypeptide binding]; other site 290402006345 dimer interface [polypeptide binding]; other site 290402006346 putative active site [active] 290402006347 MOSC domain; Region: MOSC; pfam03473 290402006348 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 290402006349 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 290402006350 molybdenum-pterin binding domain; Region: Mop; TIGR00638 290402006351 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 290402006352 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 290402006353 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402006354 Walker A/P-loop; other site 290402006355 ATP binding site [chemical binding]; other site 290402006356 Q-loop/lid; other site 290402006357 ABC transporter signature motif; other site 290402006358 Walker B; other site 290402006359 D-loop; other site 290402006360 H-loop/switch region; other site 290402006361 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 290402006362 Helix-turn-helix domain; Region: HTH_17; pfam12728 290402006363 PBP superfamily domain; Region: PBP_like; pfam12727 290402006364 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; pfam09582 290402006365 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 290402006366 nitrogenase iron protein; Region: nifH; TIGR01287 290402006367 Nucleotide-binding sites [chemical binding]; other site 290402006368 Walker A motif; other site 290402006369 Switch I region of nucleotide binding site; other site 290402006370 Fe4S4 binding sites [ion binding]; other site 290402006371 Switch II region of nucleotide binding site; other site 290402006372 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 290402006373 Nitrogen regulatory protein P-II; Region: P-II; smart00938 290402006374 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 290402006375 Nitrogen regulatory protein P-II; Region: P-II; smart00938 290402006376 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 290402006377 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 290402006378 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 290402006379 MoFe protein beta/alpha subunit interactions; other site 290402006380 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 290402006381 Beta subunit P cluster binding residues; other site 290402006382 MoFe protein beta subunit/Fe protein contacts; other site 290402006383 MoFe protein dimer/ dimer interactions; other site 290402006384 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 290402006385 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 290402006386 Nitrogenase_nifN_2: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_2; cd03466 290402006387 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 290402006388 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 290402006389 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 290402006390 FeS/SAM binding site; other site 290402006391 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 290402006392 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 290402006393 dimer interface [polypeptide binding]; other site 290402006394 [2Fe-2S] cluster binding site [ion binding]; other site 290402006395 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 290402006396 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 290402006397 FeS/SAM binding site; other site 290402006398 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 290402006399 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 290402006400 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 290402006401 FeS/SAM binding site; other site 290402006402 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 290402006403 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290402006404 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 290402006405 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290402006406 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 290402006407 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 290402006408 active site 290402006409 catalytic residues [active] 290402006410 metal binding site [ion binding]; metal-binding site 290402006411 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 290402006412 active site 290402006413 NTP binding site [chemical binding]; other site 290402006414 metal binding triad [ion binding]; metal-binding site 290402006415 antibiotic binding site [chemical binding]; other site 290402006416 Protein of unknown function DUF86; Region: DUF86; cl01031 290402006417 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 290402006418 active site 290402006419 catalytic site [active] 290402006420 substrate binding site [chemical binding]; other site 290402006421 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 290402006422 DEAD/DEAH box helicase; Region: DEAD; pfam00270 290402006423 ATP binding site [chemical binding]; other site 290402006424 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 290402006425 Patatin-like phospholipase; Region: Patatin; pfam01734 290402006426 active site 290402006427 nucleophile elbow; other site 290402006428 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290402006429 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 290402006430 DNA binding residues [nucleotide binding] 290402006431 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 290402006432 catalytic residues [active] 290402006433 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 290402006434 Part of AAA domain; Region: AAA_19; pfam13245 290402006435 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 290402006436 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 290402006437 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 290402006438 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 290402006439 Nucleotidyltransferase domain; Region: NTP_transf_2; pfam01909 290402006440 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 290402006441 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 290402006442 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 290402006443 Ligand Binding Site [chemical binding]; other site 290402006444 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 290402006445 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 290402006446 dimer interface [polypeptide binding]; other site 290402006447 phosphorylation site [posttranslational modification] 290402006448 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402006449 ATP binding site [chemical binding]; other site 290402006450 Mg2+ binding site [ion binding]; other site 290402006451 G-X-G motif; other site 290402006452 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402006453 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402006454 active site 290402006455 phosphorylation site [posttranslational modification] 290402006456 intermolecular recognition site; other site 290402006457 dimerization interface [polypeptide binding]; other site 290402006458 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 290402006459 DNA binding site [nucleotide binding] 290402006460 K+ potassium transporter; Region: K_trans; pfam02705 290402006461 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 290402006462 Helix-turn-helix domain; Region: HTH_28; pfam13518 290402006463 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 290402006464 Helix-turn-helix domain; Region: HTH_28; pfam13518 290402006465 Integrase core domain; Region: rve; pfam00665 290402006466 Integrase core domain; Region: rve_2; pfam13333 290402006467 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 290402006468 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 290402006469 substrate binding site [chemical binding]; other site 290402006470 oxyanion hole (OAH) forming residues; other site 290402006471 trimer interface [polypeptide binding]; other site 290402006472 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290402006473 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 290402006474 FAD binding site [chemical binding]; other site 290402006475 homotetramer interface [polypeptide binding]; other site 290402006476 substrate binding pocket [chemical binding]; other site 290402006477 catalytic base [active] 290402006478 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 290402006479 Ligand binding site [chemical binding]; other site 290402006480 Electron transfer flavoprotein domain; Region: ETF; pfam01012 290402006481 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 290402006482 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 290402006483 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 290402006484 (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 290402006485 dimer interaction site [polypeptide binding]; other site 290402006486 substrate-binding tunnel; other site 290402006487 active site 290402006488 catalytic site [active] 290402006489 substrate binding site [chemical binding]; other site 290402006490 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 290402006491 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 290402006492 putative active site [active] 290402006493 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 290402006494 Walker A motif; other site 290402006495 ATP binding site [chemical binding]; other site 290402006496 Walker B motif; other site 290402006497 arginine finger; other site 290402006498 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290402006499 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 290402006500 Coenzyme A transferase; Region: CoA_trans; smart00882 290402006501 Coenzyme A transferase; Region: CoA_trans; cl17247 290402006502 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 290402006503 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402006504 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402006505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 290402006506 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 290402006507 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 290402006508 Restriction endonuclease; Region: Mrr_cat; pfam04471 290402006509 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290402006510 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 290402006511 Walker A motif; other site 290402006512 ATP binding site [chemical binding]; other site 290402006513 Walker B motif; other site 290402006514 arginine finger; other site 290402006515 Transposase domain (DUF772); Region: DUF772; pfam05598 290402006516 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402006517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402006518 active site 290402006519 phosphorylation site [posttranslational modification] 290402006520 intermolecular recognition site; other site 290402006521 dimerization interface [polypeptide binding]; other site 290402006522 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 290402006523 DNA binding site [nucleotide binding] 290402006524 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402006525 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 290402006526 dimer interface [polypeptide binding]; other site 290402006527 phosphorylation site [posttranslational modification] 290402006528 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402006529 ATP binding site [chemical binding]; other site 290402006530 Mg2+ binding site [ion binding]; other site 290402006531 G-X-G motif; other site 290402006532 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402006533 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290402006534 Walker A/P-loop; other site 290402006535 ATP binding site [chemical binding]; other site 290402006536 Q-loop/lid; other site 290402006537 ABC transporter signature motif; other site 290402006538 Walker B; other site 290402006539 D-loop; other site 290402006540 H-loop/switch region; other site 290402006541 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290402006542 FtsX-like permease family; Region: FtsX; pfam02687 290402006543 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 290402006544 FtsX-like permease family; Region: FtsX; pfam02687 290402006545 Aspartyl protease; Region: Asp_protease_2; pfam13650 290402006546 inhibitor binding site; inhibition site 290402006547 catalytic motif [active] 290402006548 Catalytic residue [active] 290402006549 Active site flap [active] 290402006550 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 290402006551 ApbE family; Region: ApbE; pfam02424 290402006552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402006553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402006554 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 290402006555 dimerization interface [polypeptide binding]; other site 290402006556 Predicted flavoprotein [General function prediction only]; Region: COG0431 290402006557 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402006558 Predicted flavoprotein [General function prediction only]; Region: COG0431 290402006559 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402006560 FMN-binding domain; Region: FMN_bind; cl01081 290402006561 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 290402006562 L-aspartate oxidase; Provisional; Region: PRK06175 290402006563 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 290402006564 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 290402006565 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 290402006566 catalytic residues [active] 290402006567 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 290402006568 phosphoenolpyruvate synthase; Validated; Region: PRK06241 290402006569 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 290402006570 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290402006571 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402006572 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402006573 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402006574 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402006575 phosphoenolpyruvate synthase; Validated; Region: PRK06241 290402006576 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 290402006577 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290402006578 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 290402006579 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 290402006580 active site 290402006581 putative substrate binding pocket [chemical binding]; other site 290402006582 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 290402006583 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 290402006584 dimanganese center [ion binding]; other site 290402006585 CotJB protein; Region: CotJB; pfam12652 290402006586 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 290402006587 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 290402006588 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290402006589 substrate binding pocket [chemical binding]; other site 290402006590 membrane-bound complex binding site; other site 290402006591 hinge residues; other site 290402006592 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 290402006593 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402006594 dimer interface [polypeptide binding]; other site 290402006595 phosphorylation site [posttranslational modification] 290402006596 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402006597 ATP binding site [chemical binding]; other site 290402006598 Mg2+ binding site [ion binding]; other site 290402006599 G-X-G motif; other site 290402006600 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290402006601 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402006602 Coenzyme A binding pocket [chemical binding]; other site 290402006603 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 290402006604 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 290402006605 nudix motif; other site 290402006606 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 290402006607 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402006608 active site 290402006609 Isochorismatase family; Region: Isochorismatase; pfam00857 290402006610 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 290402006611 catalytic triad [active] 290402006612 conserved cis-peptide bond; other site 290402006613 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 290402006614 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 290402006615 active site 290402006616 CRISPR-associated protein Cas9/Csx12, subtype II-B/NMENI; Region: cas_csx12; TIGR03031 290402006617 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 290402006618 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 290402006619 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402006620 DNA-binding site [nucleotide binding]; DNA binding site 290402006621 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 290402006622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402006623 homodimer interface [polypeptide binding]; other site 290402006624 catalytic residue [active] 290402006625 LysE type translocator; Region: LysE; cl00565 290402006626 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 290402006627 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 290402006628 FMN binding site [chemical binding]; other site 290402006629 active site 290402006630 catalytic residues [active] 290402006631 substrate binding site [chemical binding]; other site 290402006632 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 290402006633 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 290402006634 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 290402006635 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 290402006636 Cache domain; Region: Cache_1; pfam02743 290402006637 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402006638 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 290402006639 dimerization interface [polypeptide binding]; other site 290402006640 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 290402006641 dimer interface [polypeptide binding]; other site 290402006642 phosphorylation site [posttranslational modification] 290402006643 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402006644 ATP binding site [chemical binding]; other site 290402006645 Mg2+ binding site [ion binding]; other site 290402006646 G-X-G motif; other site 290402006647 Putative transcription activator [Transcription]; Region: TenA; COG0819 290402006648 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290402006649 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290402006650 Walker A/P-loop; other site 290402006651 ATP binding site [chemical binding]; other site 290402006652 Q-loop/lid; other site 290402006653 ABC transporter signature motif; other site 290402006654 Walker B; other site 290402006655 D-loop; other site 290402006656 H-loop/switch region; other site 290402006657 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290402006658 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 290402006659 dimer interface [polypeptide binding]; other site 290402006660 conserved gate region; other site 290402006661 putative PBP binding loops; other site 290402006662 ABC-ATPase subunit interface; other site 290402006663 NMT1/THI5 like; Region: NMT1; pfam09084 290402006664 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 290402006665 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402006666 MarR family; Region: MarR_2; pfam12802 290402006667 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402006668 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402006669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402006670 Walker A/P-loop; other site 290402006671 ATP binding site [chemical binding]; other site 290402006672 Q-loop/lid; other site 290402006673 ABC transporter signature motif; other site 290402006674 Walker B; other site 290402006675 D-loop; other site 290402006676 H-loop/switch region; other site 290402006677 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402006678 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402006679 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 290402006680 Walker A/P-loop; other site 290402006681 ATP binding site [chemical binding]; other site 290402006682 Q-loop/lid; other site 290402006683 ABC transporter signature motif; other site 290402006684 Walker B; other site 290402006685 D-loop; other site 290402006686 H-loop/switch region; other site 290402006687 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 290402006688 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 290402006689 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 290402006690 acyl-activating enzyme (AAE) consensus motif; other site 290402006691 putative AMP binding site [chemical binding]; other site 290402006692 putative active site [active] 290402006693 putative CoA binding site [chemical binding]; other site 290402006694 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 290402006695 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 290402006696 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 290402006697 putative catalytic cysteine [active] 290402006698 FOG: CBS domain [General function prediction only]; Region: COG0517 290402006699 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 290402006700 PAS domain S-box; Region: sensory_box; TIGR00229 290402006701 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 290402006702 putative active site [active] 290402006703 heme pocket [chemical binding]; other site 290402006704 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 290402006705 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 290402006706 Walker A motif; other site 290402006707 ATP binding site [chemical binding]; other site 290402006708 Walker B motif; other site 290402006709 arginine finger; other site 290402006710 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290402006711 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 290402006712 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 290402006713 NifU-like domain; Region: NifU; cl00484 290402006714 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 290402006715 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 290402006716 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 290402006717 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402006718 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 290402006719 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402006720 Coenzyme A binding pocket [chemical binding]; other site 290402006721 histidinol-phosphatase; Reviewed; Region: PRK08123 290402006722 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 290402006723 active site 290402006724 dimer interface [polypeptide binding]; other site 290402006725 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 290402006726 putative active site [active] 290402006727 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 290402006728 dimerization interface [polypeptide binding]; other site 290402006729 putative DNA binding site [nucleotide binding]; other site 290402006730 putative Zn2+ binding site [ion binding]; other site 290402006731 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 290402006732 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 290402006733 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 290402006734 P loop; other site 290402006735 Nucleotide binding site [chemical binding]; other site 290402006736 DTAP/Switch II; other site 290402006737 Switch I; other site 290402006738 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 290402006739 P loop; other site 290402006740 Nucleotide binding site [chemical binding]; other site 290402006741 DTAP/Switch II; other site 290402006742 Switch I; other site 290402006743 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 290402006744 Low molecular weight phosphatase family; Region: LMWPc; cd00115 290402006745 active site 290402006746 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 290402006747 arsenical-resistance protein; Region: acr3; TIGR00832 290402006748 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 290402006749 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 290402006750 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 290402006751 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_2; cd04602 290402006752 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 290402006753 active site 290402006754 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 290402006755 MutS domain III; Region: MutS_III; pfam05192 290402006756 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402006757 Walker A/P-loop; other site 290402006758 ATP binding site [chemical binding]; other site 290402006759 Q-loop/lid; other site 290402006760 ABC transporter signature motif; other site 290402006761 Walker B; other site 290402006762 D-loop; other site 290402006763 H-loop/switch region; other site 290402006764 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402006765 Zn2+ binding site [ion binding]; other site 290402006766 Mg2+ binding site [ion binding]; other site 290402006767 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402006768 Zn2+ binding site [ion binding]; other site 290402006769 Mg2+ binding site [ion binding]; other site 290402006770 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402006771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402006772 active site 290402006773 phosphorylation site [posttranslational modification] 290402006774 intermolecular recognition site; other site 290402006775 dimerization interface [polypeptide binding]; other site 290402006776 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 290402006777 DNA binding site [nucleotide binding] 290402006778 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402006779 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 290402006780 dimer interface [polypeptide binding]; other site 290402006781 phosphorylation site [posttranslational modification] 290402006782 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402006783 ATP binding site [chemical binding]; other site 290402006784 Mg2+ binding site [ion binding]; other site 290402006785 G-X-G motif; other site 290402006786 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 290402006787 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290402006788 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 290402006789 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402006790 putative substrate translocation pore; other site 290402006791 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 290402006792 Putative amidase domain; Region: Amidase_6; pfam12671 290402006793 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290402006794 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 290402006795 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 290402006796 Dimer interface [polypeptide binding]; other site 290402006797 anticodon binding site; other site 290402006798 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 290402006799 homodimer interface [polypeptide binding]; other site 290402006800 motif 1; other site 290402006801 motif 2; other site 290402006802 active site 290402006803 motif 3; other site 290402006804 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 290402006805 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 290402006806 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 290402006807 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 290402006808 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 290402006809 GatB domain; Region: GatB_Yqey; smart00845 290402006810 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402006811 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 290402006812 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 290402006813 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 290402006814 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 290402006815 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 290402006816 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 290402006817 catalytic residue [active] 290402006818 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 290402006819 catalytic residues [active] 290402006820 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290402006821 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402006822 peroxiredoxin; Region: AhpC; TIGR03137 290402006823 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 290402006824 dimer interface [polypeptide binding]; other site 290402006825 decamer (pentamer of dimers) interface [polypeptide binding]; other site 290402006826 catalytic triad [active] 290402006827 peroxidatic and resolving cysteines [active] 290402006828 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402006829 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402006830 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402006831 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 290402006832 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 290402006833 intersubunit interface [polypeptide binding]; other site 290402006834 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290402006835 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 290402006836 ABC-ATPase subunit interface; other site 290402006837 dimer interface [polypeptide binding]; other site 290402006838 putative PBP binding regions; other site 290402006839 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 290402006840 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290402006841 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 290402006842 ABC-ATPase subunit interface; other site 290402006843 dimer interface [polypeptide binding]; other site 290402006844 putative PBP binding regions; other site 290402006845 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 290402006846 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 290402006847 Walker A/P-loop; other site 290402006848 ATP binding site [chemical binding]; other site 290402006849 Q-loop/lid; other site 290402006850 ABC transporter signature motif; other site 290402006851 Walker B; other site 290402006852 D-loop; other site 290402006853 H-loop/switch region; other site 290402006854 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402006855 putative substrate translocation pore; other site 290402006856 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402006857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402006858 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 290402006859 dimerization interface [polypeptide binding]; other site 290402006860 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402006861 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402006862 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402006863 Walker A/P-loop; other site 290402006864 ATP binding site [chemical binding]; other site 290402006865 Q-loop/lid; other site 290402006866 ABC transporter signature motif; other site 290402006867 Walker B; other site 290402006868 D-loop; other site 290402006869 H-loop/switch region; other site 290402006870 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402006871 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402006872 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 290402006873 Walker A/P-loop; other site 290402006874 ATP binding site [chemical binding]; other site 290402006875 Q-loop/lid; other site 290402006876 ABC transporter signature motif; other site 290402006877 Walker B; other site 290402006878 D-loop; other site 290402006879 H-loop/switch region; other site 290402006880 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 290402006881 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 290402006882 NodB motif; other site 290402006883 active site 290402006884 catalytic site [active] 290402006885 Zn binding site [ion binding]; other site 290402006886 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 290402006887 dimerization domain swap beta strand [polypeptide binding]; other site 290402006888 regulatory protein interface [polypeptide binding]; other site 290402006889 active site 290402006890 regulatory phosphorylation site [posttranslational modification]; other site 290402006891 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 290402006892 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 290402006893 putative active site [active] 290402006894 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 290402006895 putative active site [active] 290402006896 heme pocket [chemical binding]; other site 290402006897 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 290402006898 Walker A motif; other site 290402006899 ATP binding site [chemical binding]; other site 290402006900 Walker B motif; other site 290402006901 arginine finger; other site 290402006902 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 290402006903 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 290402006904 DAK2 domain; Region: Dak2; cl03685 290402006905 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 290402006906 active pocket/dimerization site; other site 290402006907 active site 290402006908 phosphorylation site [posttranslational modification] 290402006909 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 290402006910 FAD binding pocket [chemical binding]; other site 290402006911 conserved FAD binding motif [chemical binding]; other site 290402006912 phosphate binding motif [ion binding]; other site 290402006913 beta-alpha-beta structure motif; other site 290402006914 NAD binding pocket [chemical binding]; other site 290402006915 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 290402006916 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 290402006917 active site 290402006918 FMN binding site [chemical binding]; other site 290402006919 substrate binding site [chemical binding]; other site 290402006920 putative catalytic residue [active] 290402006921 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290402006922 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 290402006923 putative DNA binding site [nucleotide binding]; other site 290402006924 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402006925 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402006926 putative substrate translocation pore; other site 290402006927 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402006928 3D domain; Region: 3D; cl01439 290402006929 5'-3' exonuclease; Region: 53EXOc; smart00475 290402006930 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 290402006931 active site 290402006932 metal binding site 1 [ion binding]; metal-binding site 290402006933 putative 5' ssDNA interaction site; other site 290402006934 metal binding site 3; metal-binding site 290402006935 metal binding site 2 [ion binding]; metal-binding site 290402006936 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 290402006937 putative DNA binding site [nucleotide binding]; other site 290402006938 putative metal binding site [ion binding]; other site 290402006939 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 290402006940 active site 290402006941 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290402006942 Rubrerythrin [Energy production and conversion]; Region: COG1592 290402006943 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 290402006944 iron binding site [ion binding]; other site 290402006945 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar5; cd09133 290402006946 putative active site [active] 290402006947 putative catalytic site [active] 290402006948 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 290402006949 dimerization interface [polypeptide binding]; other site 290402006950 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 290402006951 dimer interface [polypeptide binding]; other site 290402006952 phosphorylation site [posttranslational modification] 290402006953 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402006954 ATP binding site [chemical binding]; other site 290402006955 Mg2+ binding site [ion binding]; other site 290402006956 G-X-G motif; other site 290402006957 Response regulator receiver domain; Region: Response_reg; pfam00072 290402006958 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402006959 active site 290402006960 phosphorylation site [posttranslational modification] 290402006961 intermolecular recognition site; other site 290402006962 dimerization interface [polypeptide binding]; other site 290402006963 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 290402006964 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402006965 active site 290402006966 phosphorylation site [posttranslational modification] 290402006967 intermolecular recognition site; other site 290402006968 dimerization interface [polypeptide binding]; other site 290402006969 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 290402006970 putative binding surface; other site 290402006971 active site 290402006972 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402006973 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 290402006974 non-specific DNA binding site [nucleotide binding]; other site 290402006975 salt bridge; other site 290402006976 sequence-specific DNA binding site [nucleotide binding]; other site 290402006977 Hemerythrin; Region: Hemerythrin; cd12107 290402006978 Fe binding site [ion binding]; other site 290402006979 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402006980 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 290402006981 dimer interface [polypeptide binding]; other site 290402006982 phosphorylation site [posttranslational modification] 290402006983 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402006984 ATP binding site [chemical binding]; other site 290402006985 Mg2+ binding site [ion binding]; other site 290402006986 G-X-G motif; other site 290402006987 Response regulator receiver domain; Region: Response_reg; pfam00072 290402006988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402006989 active site 290402006990 phosphorylation site [posttranslational modification] 290402006991 intermolecular recognition site; other site 290402006992 dimerization interface [polypeptide binding]; other site 290402006993 Histidine kinase; Region: His_kinase; pfam06580 290402006994 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402006995 ATP binding site [chemical binding]; other site 290402006996 Mg2+ binding site [ion binding]; other site 290402006997 G-X-G motif; other site 290402006998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402006999 Response regulator receiver domain; Region: Response_reg; pfam00072 290402007000 active site 290402007001 phosphorylation site [posttranslational modification] 290402007002 intermolecular recognition site; other site 290402007003 dimerization interface [polypeptide binding]; other site 290402007004 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 290402007005 Bacterial transcriptional activator domain; Region: BTAD; smart01043 290402007006 Septum formation topological specificity factor MinE; Region: MinE; pfam03776 290402007007 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 290402007008 ArsC family; Region: ArsC; pfam03960 290402007009 putative ArsC-like catalytic residues; other site 290402007010 putative TRX-like catalytic residues [active] 290402007011 2-isopropylmalate synthase; Validated; Region: PRK03739 290402007012 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 290402007013 active site 290402007014 catalytic residues [active] 290402007015 metal binding site [ion binding]; metal-binding site 290402007016 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 290402007017 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290402007018 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402007019 hypothetical protein; Provisional; Region: PRK02237 290402007020 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 290402007021 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 290402007022 Walker A motif; other site 290402007023 ATP binding site [chemical binding]; other site 290402007024 Walker B motif; other site 290402007025 arginine finger; other site 290402007026 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290402007027 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 290402007028 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 290402007029 putative active site [active] 290402007030 metal binding site [ion binding]; metal-binding site 290402007031 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 290402007032 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 290402007033 FAD binding pocket [chemical binding]; other site 290402007034 FAD binding motif [chemical binding]; other site 290402007035 phosphate binding motif [ion binding]; other site 290402007036 beta-alpha-beta structure motif; other site 290402007037 NAD binding pocket [chemical binding]; other site 290402007038 Iron coordination center [ion binding]; other site 290402007039 putative oxidoreductase; Provisional; Region: PRK12831 290402007040 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 290402007041 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290402007042 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 290402007043 EAL domain; Region: EAL; pfam00563 290402007044 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402007045 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402007046 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402007047 dimer interface [polypeptide binding]; other site 290402007048 putative CheW interface [polypeptide binding]; other site 290402007049 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 290402007050 active site 290402007051 P-loop; other site 290402007052 phosphorylation site [posttranslational modification] 290402007053 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 290402007054 FMN binding site [chemical binding]; other site 290402007055 dimer interface [polypeptide binding]; other site 290402007056 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 290402007057 Domain of unknown function DUF21; Region: DUF21; pfam01595 290402007058 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 290402007059 Transporter associated domain; Region: CorC_HlyC; smart01091 290402007060 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402007061 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402007062 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 290402007063 putative active site [active] 290402007064 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 290402007065 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290402007066 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 290402007067 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_12; cd12177 290402007068 putative ligand binding site [chemical binding]; other site 290402007069 putative NAD binding site [chemical binding]; other site 290402007070 catalytic site [active] 290402007071 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 290402007072 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 290402007073 putative active site [active] 290402007074 metal binding site [ion binding]; metal-binding site 290402007075 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 290402007076 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 290402007077 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 290402007078 active site 290402007079 phosphorylation site [posttranslational modification] 290402007080 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 290402007081 active pocket/dimerization site; other site 290402007082 active site 290402007083 phosphorylation site [posttranslational modification] 290402007084 mannonate dehydratase; Provisional; Region: PRK03906 290402007085 mannonate dehydratase; Region: uxuA; TIGR00695 290402007086 Entner-Doudoroff aldolase; Region: eda; TIGR01182 290402007087 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 290402007088 active site 290402007089 intersubunit interface [polypeptide binding]; other site 290402007090 catalytic residue [active] 290402007091 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290402007092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402007093 Walker A/P-loop; other site 290402007094 ATP binding site [chemical binding]; other site 290402007095 Q-loop/lid; other site 290402007096 ABC transporter signature motif; other site 290402007097 Walker B; other site 290402007098 D-loop; other site 290402007099 H-loop/switch region; other site 290402007100 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 290402007101 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 290402007102 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402007103 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402007104 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 290402007105 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402007106 DNA-binding site [nucleotide binding]; DNA binding site 290402007107 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 290402007108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402007109 homodimer interface [polypeptide binding]; other site 290402007110 catalytic residue [active] 290402007111 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 290402007112 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 290402007113 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 290402007114 inhibitor-cofactor binding pocket; inhibition site 290402007115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402007116 catalytic residue [active] 290402007117 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 290402007118 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402007119 Coenzyme A binding pocket [chemical binding]; other site 290402007120 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 290402007121 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402007122 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402007123 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402007124 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402007125 Integral membrane protein TerC family; Region: TerC; cl10468 290402007126 Peptidase family M48; Region: Peptidase_M48; cl12018 290402007127 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402007128 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 290402007129 non-specific DNA binding site [nucleotide binding]; other site 290402007130 salt bridge; other site 290402007131 sequence-specific DNA binding site [nucleotide binding]; other site 290402007132 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 290402007133 non-specific DNA binding site [nucleotide binding]; other site 290402007134 salt bridge; other site 290402007135 sequence-specific DNA binding site [nucleotide binding]; other site 290402007136 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 290402007137 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 290402007138 Walker A motif; other site 290402007139 ATP binding site [chemical binding]; other site 290402007140 Walker B motif; other site 290402007141 arginine finger; other site 290402007142 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 290402007143 Rrf2 family protein; Region: rrf2_super; TIGR00738 290402007144 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 290402007145 putative DNA binding site [nucleotide binding]; other site 290402007146 putative Zn2+ binding site [ion binding]; other site 290402007147 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 290402007148 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 290402007149 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 290402007150 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 290402007151 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 290402007152 EamA-like transporter family; Region: EamA; pfam00892 290402007153 Predicted transcriptional regulators [Transcription]; Region: COG1378 290402007154 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 290402007155 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 290402007156 C-terminal domain interface [polypeptide binding]; other site 290402007157 sugar binding site [chemical binding]; other site 290402007158 Predicted transcriptional regulator [Transcription]; Region: COG2345 290402007159 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 290402007160 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 290402007161 metal binding site [ion binding]; metal-binding site 290402007162 dimer interface [polypeptide binding]; other site 290402007163 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 290402007164 enoyl-CoA hydratase; Region: PLN02600 290402007165 substrate binding site [chemical binding]; other site 290402007166 oxyanion hole (OAH) forming residues; other site 290402007167 trimer interface [polypeptide binding]; other site 290402007168 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 290402007169 substrate binding site [chemical binding]; other site 290402007170 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 290402007171 trimer interface [polypeptide binding]; other site 290402007172 oxyanion hole (OAH) forming residues; other site 290402007173 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 290402007174 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 290402007175 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 290402007176 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 290402007177 dimerization interface [polypeptide binding]; other site 290402007178 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402007179 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402007180 dimer interface [polypeptide binding]; other site 290402007181 putative CheW interface [polypeptide binding]; other site 290402007182 RibD C-terminal domain; Region: RibD_C; cl17279 290402007183 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 290402007184 YvrJ protein family; Region: YvrJ; pfam12841 290402007185 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 290402007186 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402007187 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402007188 putative substrate translocation pore; other site 290402007189 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402007190 Uncharacterized conserved protein [Function unknown]; Region: COG5015 290402007191 Cupin domain; Region: Cupin_2; cl17218 290402007192 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402007193 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 290402007194 dimerization interface [polypeptide binding]; other site 290402007195 putative DNA binding site [nucleotide binding]; other site 290402007196 putative Zn2+ binding site [ion binding]; other site 290402007197 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 290402007198 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 290402007199 putative NAD(P) binding site [chemical binding]; other site 290402007200 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402007201 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402007202 Cupin domain; Region: Cupin_2; cl17218 290402007203 YvrJ protein family; Region: YvrJ; pfam12841 290402007204 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 290402007205 S-adenosylmethionine binding site [chemical binding]; other site 290402007206 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402007207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402007208 active site 290402007209 phosphorylation site [posttranslational modification] 290402007210 intermolecular recognition site; other site 290402007211 dimerization interface [polypeptide binding]; other site 290402007212 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 290402007213 DNA binding site [nucleotide binding] 290402007214 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402007215 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 290402007216 dimerization interface [polypeptide binding]; other site 290402007217 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 290402007218 dimer interface [polypeptide binding]; other site 290402007219 phosphorylation site [posttranslational modification] 290402007220 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402007221 ATP binding site [chemical binding]; other site 290402007222 Mg2+ binding site [ion binding]; other site 290402007223 G-X-G motif; other site 290402007224 Uncharacterized conserved protein [Function unknown]; Region: COG0398 290402007225 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 290402007226 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402007227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402007228 active site 290402007229 phosphorylation site [posttranslational modification] 290402007230 intermolecular recognition site; other site 290402007231 dimerization interface [polypeptide binding]; other site 290402007232 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 290402007233 DNA binding site [nucleotide binding] 290402007234 YvrJ protein family; Region: YvrJ; pfam12841 290402007235 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 290402007236 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 290402007237 homodimer interface [polypeptide binding]; other site 290402007238 active site 290402007239 TDP-binding site; other site 290402007240 acceptor substrate-binding pocket; other site 290402007241 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 290402007242 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402007243 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 290402007244 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 290402007245 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290402007246 catalytic residue [active] 290402007247 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402007248 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 290402007249 non-specific DNA binding site [nucleotide binding]; other site 290402007250 salt bridge; other site 290402007251 sequence-specific DNA binding site [nucleotide binding]; other site 290402007252 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 290402007253 non-specific DNA binding site [nucleotide binding]; other site 290402007254 salt bridge; other site 290402007255 sequence-specific DNA binding site [nucleotide binding]; other site 290402007256 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 290402007257 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 290402007258 Walker A motif; other site 290402007259 ATP binding site [chemical binding]; other site 290402007260 Walker B motif; other site 290402007261 arginine finger; other site 290402007262 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 290402007263 BRO family, N-terminal domain; Region: Bro-N; smart01040 290402007264 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 290402007265 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 290402007266 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 290402007267 hybrid cluster protein; Provisional; Region: PRK05290 290402007268 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 290402007269 ACS interaction site; other site 290402007270 CODH interaction site; other site 290402007271 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 290402007272 hybrid metal cluster; other site 290402007273 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290402007274 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 290402007275 ligand binding site [chemical binding]; other site 290402007276 flexible hinge region; other site 290402007277 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 290402007278 putative switch regulator; other site 290402007279 non-specific DNA interactions [nucleotide binding]; other site 290402007280 DNA binding site [nucleotide binding] 290402007281 sequence specific DNA binding site [nucleotide binding]; other site 290402007282 putative cAMP binding site [chemical binding]; other site 290402007283 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 290402007284 Rubredoxin [Energy production and conversion]; Region: COG1773 290402007285 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 290402007286 iron binding site [ion binding]; other site 290402007287 hybrid cluster protein; Provisional; Region: PRK05290 290402007288 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 290402007289 ACS interaction site; other site 290402007290 CODH interaction site; other site 290402007291 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 290402007292 hybrid metal cluster; other site 290402007293 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 290402007294 FAD binding pocket [chemical binding]; other site 290402007295 FAD binding motif [chemical binding]; other site 290402007296 phosphate binding motif [ion binding]; other site 290402007297 beta-alpha-beta structure motif; other site 290402007298 NAD binding pocket [chemical binding]; other site 290402007299 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 290402007300 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 290402007301 tetrameric interface [polypeptide binding]; other site 290402007302 activator binding site; other site 290402007303 NADP binding site [chemical binding]; other site 290402007304 substrate binding site [chemical binding]; other site 290402007305 catalytic residues [active] 290402007306 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402007307 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 290402007308 hybrid cluster protein; Provisional; Region: PRK05290 290402007309 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 290402007310 ACS interaction site; other site 290402007311 CODH interaction site; other site 290402007312 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 290402007313 ACS interaction site; other site 290402007314 CODH interaction site; other site 290402007315 metal cluster binding site [ion binding]; other site 290402007316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 290402007317 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290402007318 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290402007319 Restriction endonuclease; Region: Mrr_cat; pfam04471 290402007320 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 290402007321 Chloramphenicol acetyltransferase; Region: CAT; smart01059 290402007322 YvrJ protein family; Region: YvrJ; pfam12841 290402007323 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 290402007324 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 290402007325 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 290402007326 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402007327 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 290402007328 active site 290402007329 metal binding site [ion binding]; metal-binding site 290402007330 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 290402007331 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 290402007332 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 290402007333 Int/Topo IB signature motif; other site 290402007334 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 290402007335 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 290402007336 active site 290402007337 C-terminal domain interface [polypeptide binding]; other site 290402007338 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 290402007339 active site 290402007340 N-terminal domain interface [polypeptide binding]; other site 290402007341 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 290402007342 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 290402007343 catalytic triad [active] 290402007344 precorrin-8X methylmutase; Validated; Region: cbiC; PRK05575 290402007345 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 290402007346 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 290402007347 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 290402007348 active site 290402007349 putative homodimer interface [polypeptide binding]; other site 290402007350 SAM binding site [chemical binding]; other site 290402007351 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 290402007352 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 290402007353 S-adenosylmethionine binding site [chemical binding]; other site 290402007354 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 290402007355 active site 290402007356 SAM binding site [chemical binding]; other site 290402007357 homodimer interface [polypeptide binding]; other site 290402007358 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 290402007359 active site 290402007360 SAM binding site [chemical binding]; other site 290402007361 homodimer interface [polypeptide binding]; other site 290402007362 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 290402007363 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 290402007364 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 290402007365 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 290402007366 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 290402007367 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402007368 DNA-binding site [nucleotide binding]; DNA binding site 290402007369 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 290402007370 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 290402007371 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402007372 active site turn [active] 290402007373 phosphorylation site [posttranslational modification] 290402007374 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402007375 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 290402007376 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 290402007377 Ca binding site [ion binding]; other site 290402007378 active site 290402007379 catalytic site [active] 290402007380 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402007381 Zn2+ binding site [ion binding]; other site 290402007382 Mg2+ binding site [ion binding]; other site 290402007383 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 290402007384 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402007385 Coenzyme A binding pocket [chemical binding]; other site 290402007386 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 290402007387 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 290402007388 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 290402007389 Rubredoxin; Region: Rubredoxin; pfam00301 290402007390 iron binding site [ion binding]; other site 290402007391 Rubrerythrin [Energy production and conversion]; Region: COG1592 290402007392 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 290402007393 diiron binding motif [ion binding]; other site 290402007394 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 290402007395 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 290402007396 motif II; other site 290402007397 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 290402007398 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402007399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402007400 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 290402007401 dimerization interface [polypeptide binding]; other site 290402007402 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 290402007403 substrate binding site [chemical binding]; other site 290402007404 zinc-binding site [ion binding]; other site 290402007405 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 290402007406 substrate binding site [chemical binding]; other site 290402007407 THF binding site; other site 290402007408 zinc-binding site [ion binding]; other site 290402007409 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 290402007410 putative catalytic site [active] 290402007411 putative metal binding site [ion binding]; other site 290402007412 putative phosphate binding site [ion binding]; other site 290402007413 3D domain; Region: 3D; cl01439 290402007414 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 290402007415 synthetase active site [active] 290402007416 NTP binding site [chemical binding]; other site 290402007417 metal binding site [ion binding]; metal-binding site 290402007418 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 290402007419 FMN binding site [chemical binding]; other site 290402007420 dimer interface [polypeptide binding]; other site 290402007421 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 290402007422 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 290402007423 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402007424 Hemerythrin; Region: Hemerythrin; cd12107 290402007425 Fe binding site [ion binding]; other site 290402007426 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 290402007427 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 290402007428 active site 290402007429 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 290402007430 Aspartase; Region: Aspartase; cd01357 290402007431 active sites [active] 290402007432 tetramer interface [polypeptide binding]; other site 290402007433 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290402007434 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 290402007435 putative DNA binding site [nucleotide binding]; other site 290402007436 putative Zn2+ binding site [ion binding]; other site 290402007437 AsnC family; Region: AsnC_trans_reg; pfam01037 290402007438 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 290402007439 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 290402007440 putative active site [active] 290402007441 putative metal binding site [ion binding]; other site 290402007442 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 290402007443 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 290402007444 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 290402007445 hypothetical protein; Provisional; Region: PRK00955 290402007446 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 290402007447 Predicted permeases [General function prediction only]; Region: COG0679 290402007448 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 290402007449 active site 290402007450 putative catalytic site [active] 290402007451 DNA binding site [nucleotide binding] 290402007452 putative phosphate binding site [ion binding]; other site 290402007453 metal binding site A [ion binding]; metal-binding site 290402007454 AP binding site [nucleotide binding]; other site 290402007455 metal binding site B [ion binding]; metal-binding site 290402007456 Protein of unknown function, DUF624; Region: DUF624; pfam04854 290402007457 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290402007458 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290402007459 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 290402007460 putative PBP binding loops; other site 290402007461 dimer interface [polypeptide binding]; other site 290402007462 ABC-ATPase subunit interface; other site 290402007463 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290402007464 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 290402007465 dimer interface [polypeptide binding]; other site 290402007466 conserved gate region; other site 290402007467 putative PBP binding loops; other site 290402007468 ABC-ATPase subunit interface; other site 290402007469 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 290402007470 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 290402007471 Predicted transcriptional regulator [Transcription]; Region: COG4189 290402007472 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 290402007473 dimerization interface [polypeptide binding]; other site 290402007474 putative DNA binding site [nucleotide binding]; other site 290402007475 putative Zn2+ binding site [ion binding]; other site 290402007476 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290402007477 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402007478 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402007479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 290402007480 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 290402007481 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 290402007482 Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner; Region: G1PDH; cd08175 290402007483 active site 290402007484 metal binding site [ion binding]; metal-binding site 290402007485 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 290402007486 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 290402007487 motif II; other site 290402007488 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 290402007489 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 290402007490 putative active site [active] 290402007491 putative CoA binding site [chemical binding]; other site 290402007492 nudix motif; other site 290402007493 metal binding site [ion binding]; metal-binding site 290402007494 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 290402007495 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402007496 active site 290402007497 dimer interface [polypeptide binding]; other site 290402007498 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 290402007499 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402007500 Coenzyme A binding pocket [chemical binding]; other site 290402007501 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402007502 AAA domain; Region: AAA_21; pfam13304 290402007503 Walker A/P-loop; other site 290402007504 ATP binding site [chemical binding]; other site 290402007505 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 290402007506 Walker B; other site 290402007507 D-loop; other site 290402007508 H-loop/switch region; other site 290402007509 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290402007510 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 290402007511 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 290402007512 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 290402007513 DNA binding residues [nucleotide binding] 290402007514 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 290402007515 putative dimer interface [polypeptide binding]; other site 290402007516 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 290402007517 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 290402007518 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 290402007519 AsnC family; Region: AsnC_trans_reg; pfam01037 290402007520 Isochorismatase family; Region: Isochorismatase; pfam00857 290402007521 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 290402007522 catalytic triad [active] 290402007523 conserved cis-peptide bond; other site 290402007524 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402007525 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 290402007526 ligand binding site [chemical binding]; other site 290402007527 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402007528 HAMP domain; Region: HAMP; pfam00672 290402007529 Histidine kinase; Region: His_kinase; pfam06580 290402007530 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402007531 ATP binding site [chemical binding]; other site 290402007532 Mg2+ binding site [ion binding]; other site 290402007533 G-X-G motif; other site 290402007534 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 290402007535 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402007536 active site 290402007537 phosphorylation site [posttranslational modification] 290402007538 intermolecular recognition site; other site 290402007539 dimerization interface [polypeptide binding]; other site 290402007540 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402007541 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402007542 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 290402007543 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 290402007544 putative ligand binding site [chemical binding]; other site 290402007545 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 290402007546 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290402007547 Walker A/P-loop; other site 290402007548 ATP binding site [chemical binding]; other site 290402007549 Q-loop/lid; other site 290402007550 ABC transporter signature motif; other site 290402007551 Walker B; other site 290402007552 D-loop; other site 290402007553 H-loop/switch region; other site 290402007554 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290402007555 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 290402007556 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 290402007557 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402007558 TM-ABC transporter signature motif; other site 290402007559 xylose isomerase; Provisional; Region: PRK05474 290402007560 xylose isomerase; Region: xylose_isom_A; TIGR02630 290402007561 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 290402007562 N- and C-terminal domain interface [polypeptide binding]; other site 290402007563 D-xylulose kinase; Region: XylB; TIGR01312 290402007564 active site 290402007565 MgATP binding site [chemical binding]; other site 290402007566 catalytic site [active] 290402007567 metal binding site [ion binding]; metal-binding site 290402007568 xylulose binding site [chemical binding]; other site 290402007569 homodimer interface [polypeptide binding]; other site 290402007570 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 290402007571 putative DNA binding site [nucleotide binding]; other site 290402007572 putative Zn2+ binding site [ion binding]; other site 290402007573 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290402007574 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290402007575 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290402007576 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 290402007577 active site 290402007578 intersubunit interactions; other site 290402007579 catalytic residue [active] 290402007580 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 290402007581 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 290402007582 TPP-binding site [chemical binding]; other site 290402007583 dimer interface [polypeptide binding]; other site 290402007584 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 290402007585 PYR/PP interface [polypeptide binding]; other site 290402007586 dimer interface [polypeptide binding]; other site 290402007587 TPP binding site [chemical binding]; other site 290402007588 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290402007589 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 290402007590 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 290402007591 hexamer (dimer of trimers) interface [polypeptide binding]; other site 290402007592 trimer interface [polypeptide binding]; other site 290402007593 substrate binding site [chemical binding]; other site 290402007594 Mn binding site [ion binding]; other site 290402007595 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290402007596 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402007597 DNA-binding site [nucleotide binding]; DNA binding site 290402007598 FCD domain; Region: FCD; pfam07729 290402007599 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290402007600 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 290402007601 substrate binding pocket [chemical binding]; other site 290402007602 membrane-bound complex binding site; other site 290402007603 hinge residues; other site 290402007604 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290402007605 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290402007606 Walker A/P-loop; other site 290402007607 ATP binding site [chemical binding]; other site 290402007608 Q-loop/lid; other site 290402007609 ABC transporter signature motif; other site 290402007610 Walker B; other site 290402007611 D-loop; other site 290402007612 H-loop/switch region; other site 290402007613 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 290402007614 active site 290402007615 homodimer interface [polypeptide binding]; other site 290402007616 homotetramer interface [polypeptide binding]; other site 290402007617 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 290402007618 putative active site [active] 290402007619 putative metal binding site [ion binding]; other site 290402007620 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 290402007621 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 290402007622 active site 290402007623 dimer interface [polypeptide binding]; other site 290402007624 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 290402007625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290402007626 NAD(P) binding site [chemical binding]; other site 290402007627 active site 290402007628 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 290402007629 dimerization interface [polypeptide binding]; other site 290402007630 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 290402007631 dimer interface [polypeptide binding]; other site 290402007632 phosphorylation site [posttranslational modification] 290402007633 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402007634 ATP binding site [chemical binding]; other site 290402007635 Mg2+ binding site [ion binding]; other site 290402007636 G-X-G motif; other site 290402007637 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402007638 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402007639 active site 290402007640 phosphorylation site [posttranslational modification] 290402007641 intermolecular recognition site; other site 290402007642 dimerization interface [polypeptide binding]; other site 290402007643 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 290402007644 DNA binding site [nucleotide binding] 290402007645 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 290402007646 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 290402007647 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 290402007648 RecX family; Region: RecX; cl00936 290402007649 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 290402007650 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 290402007651 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 290402007652 binding surface 290402007653 TPR motif; other site 290402007654 TPR repeat; Region: TPR_11; pfam13414 290402007655 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 290402007656 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 290402007657 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 290402007658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 290402007659 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 290402007660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 290402007661 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 290402007662 EamA-like transporter family; Region: EamA; cl17759 290402007663 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 290402007664 EamA-like transporter family; Region: EamA; pfam00892 290402007665 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402007666 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 290402007667 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_27; cd04686 290402007668 nudix motif; other site 290402007669 MATE family multidrug exporter; Provisional; Region: PRK10189 290402007670 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 290402007671 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 290402007672 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 290402007673 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 290402007674 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 290402007675 active site 290402007676 HIGH motif; other site 290402007677 dimer interface [polypeptide binding]; other site 290402007678 KMSKS motif; other site 290402007679 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 290402007680 Domain of unknown function DUF20; Region: UPF0118; pfam01594 290402007681 exopolyphosphatase; Region: exo_poly_only; TIGR03706 290402007682 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 290402007683 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 290402007684 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 290402007685 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 290402007686 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 290402007687 putative domain interface [polypeptide binding]; other site 290402007688 putative active site [active] 290402007689 catalytic site [active] 290402007690 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 290402007691 putative domain interface [polypeptide binding]; other site 290402007692 putative active site [active] 290402007693 catalytic site [active] 290402007694 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402007695 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 290402007696 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 290402007697 dimer interface [polypeptide binding]; other site 290402007698 active site 290402007699 metal binding site [ion binding]; metal-binding site 290402007700 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 290402007701 putative dimer interface [polypeptide binding]; other site 290402007702 catalytic triad [active] 290402007703 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 290402007704 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402007705 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402007706 metal binding site [ion binding]; metal-binding site 290402007707 active site 290402007708 I-site; other site 290402007709 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 290402007710 Protein of unknown function (DUF342); Region: DUF342; pfam03961 290402007711 xanthine permease; Region: pbuX; TIGR03173 290402007712 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402007713 active site 290402007714 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 290402007715 peptidase T; Region: peptidase-T; TIGR01882 290402007716 metal binding site [ion binding]; metal-binding site 290402007717 dimer interface [polypeptide binding]; other site 290402007718 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 290402007719 ATP binding site [chemical binding]; other site 290402007720 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 290402007721 putative Mg++ binding site [ion binding]; other site 290402007722 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 290402007723 nucleotide binding region [chemical binding]; other site 290402007724 ATP-binding site [chemical binding]; other site 290402007725 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 290402007726 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402007727 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290402007728 Walker A/P-loop; other site 290402007729 ATP binding site [chemical binding]; other site 290402007730 Q-loop/lid; other site 290402007731 ABC transporter signature motif; other site 290402007732 Walker B; other site 290402007733 D-loop; other site 290402007734 H-loop/switch region; other site 290402007735 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 290402007736 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 290402007737 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402007738 active site 290402007739 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 290402007740 metal binding site [ion binding]; metal-binding site 290402007741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 290402007742 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 290402007743 NlpC/P60 family; Region: NLPC_P60; pfam00877 290402007744 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 290402007745 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 290402007746 putative active site [active] 290402007747 heme pocket [chemical binding]; other site 290402007748 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 290402007749 dimer interface [polypeptide binding]; other site 290402007750 phosphorylation site [posttranslational modification] 290402007751 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402007752 ATP binding site [chemical binding]; other site 290402007753 Mg2+ binding site [ion binding]; other site 290402007754 G-X-G motif; other site 290402007755 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 290402007756 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402007757 Zn2+ binding site [ion binding]; other site 290402007758 Mg2+ binding site [ion binding]; other site 290402007759 Protein of unknown function (DUF503); Region: DUF503; pfam04456 290402007760 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 290402007761 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 290402007762 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 290402007763 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 290402007764 metal binding triad [ion binding]; metal-binding site 290402007765 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 290402007766 nudix motif; other site 290402007767 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 290402007768 YibE/F-like protein; Region: YibE_F; pfam07907 290402007769 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 290402007770 ornithine carbamoyltransferase; Validated; Region: PRK02102 290402007771 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 290402007772 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 290402007773 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402007774 Coenzyme A binding pocket [chemical binding]; other site 290402007775 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 290402007776 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 290402007777 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 290402007778 carboxyltransferase (CT) interaction site; other site 290402007779 SLBB domain; Region: SLBB; pfam10531 290402007780 4Fe-4S binding domain; Region: Fer4_6; pfam12837 290402007781 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 290402007782 FMN-binding domain; Region: FMN_bind; cl01081 290402007783 electron transport complex RsxE subunit; Provisional; Region: PRK12405 290402007784 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 290402007785 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 290402007786 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 290402007787 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 290402007788 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 290402007789 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 290402007790 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 290402007791 trimer interface [polypeptide binding]; other site 290402007792 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402007793 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402007794 DNA binding site [nucleotide binding] 290402007795 domain linker motif; other site 290402007796 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 290402007797 dimerization interface [polypeptide binding]; other site 290402007798 ligand binding site [chemical binding]; other site 290402007799 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 290402007800 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 290402007801 Cache domain; Region: Cache_1; pfam02743 290402007802 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 290402007803 dimerization interface [polypeptide binding]; other site 290402007804 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 290402007805 PAS fold; Region: PAS_3; pfam08447 290402007806 putative active site [active] 290402007807 heme pocket [chemical binding]; other site 290402007808 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402007809 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402007810 metal binding site [ion binding]; metal-binding site 290402007811 active site 290402007812 I-site; other site 290402007813 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 290402007814 methionine sulfoxide reductase B; Provisional; Region: PRK00222 290402007815 SelR domain; Region: SelR; pfam01641 290402007816 Protein of unknown function (DUF523); Region: DUF523; pfam04463 290402007817 Uncharacterized conserved protein [Function unknown]; Region: COG3272 290402007818 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 290402007819 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 290402007820 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 290402007821 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 290402007822 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 290402007823 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 290402007824 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 290402007825 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290402007826 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 290402007827 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 290402007828 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290402007829 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 290402007830 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 290402007831 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 290402007832 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme; Region: E_set_GDE_N; cd11234 290402007833 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 290402007834 active site 290402007835 catalytic site [active] 290402007836 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402007837 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 290402007838 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 290402007839 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402007840 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 290402007841 dimerization interface [polypeptide binding]; other site 290402007842 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 290402007843 dimer interface [polypeptide binding]; other site 290402007844 phosphorylation site [posttranslational modification] 290402007845 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402007846 ATP binding site [chemical binding]; other site 290402007847 Mg2+ binding site [ion binding]; other site 290402007848 G-X-G motif; other site 290402007849 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402007850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402007851 active site 290402007852 phosphorylation site [posttranslational modification] 290402007853 intermolecular recognition site; other site 290402007854 dimerization interface [polypeptide binding]; other site 290402007855 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 290402007856 DNA binding site [nucleotide binding] 290402007857 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402007858 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402007859 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290402007860 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402007861 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290402007862 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 290402007863 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402007864 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402007865 Predicted thioesterase [General function prediction only]; Region: COG5496 290402007866 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402007867 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402007868 Lyc muramidase is an autolytic lysozyme (autolysin) from Clostridium acetobutylicum encoded by the lyc gene. Lyc has a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan...; Region: GH25_Lyc-like; cd06525 290402007869 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 290402007870 active site 290402007871 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402007872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402007873 active site 290402007874 phosphorylation site [posttranslational modification] 290402007875 intermolecular recognition site; other site 290402007876 dimerization interface [polypeptide binding]; other site 290402007877 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 290402007878 DNA binding site [nucleotide binding] 290402007879 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402007880 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 290402007881 dimerization interface [polypeptide binding]; other site 290402007882 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 290402007883 dimer interface [polypeptide binding]; other site 290402007884 phosphorylation site [posttranslational modification] 290402007885 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402007886 ATP binding site [chemical binding]; other site 290402007887 Mg2+ binding site [ion binding]; other site 290402007888 G-X-G motif; other site 290402007889 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 290402007890 RNA/DNA hybrid binding site [nucleotide binding]; other site 290402007891 active site 290402007892 hypothetical protein; Provisional; Region: PRK05590 290402007893 Predicted acetyltransferase [General function prediction only]; Region: COG2388 290402007894 Protein of unknown function (DUF523); Region: DUF523; pfam04463 290402007895 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 290402007896 Rubredoxin; Region: Rubredoxin; pfam00301 290402007897 iron binding site [ion binding]; other site 290402007898 Rubrerythrin [Energy production and conversion]; Region: COG1592 290402007899 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 290402007900 diiron binding motif [ion binding]; other site 290402007901 PAS domain S-box; Region: sensory_box; TIGR00229 290402007902 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 290402007903 putative active site [active] 290402007904 heme pocket [chemical binding]; other site 290402007905 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402007906 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402007907 metal binding site [ion binding]; metal-binding site 290402007908 active site 290402007909 I-site; other site 290402007910 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 290402007911 flavodoxin; Provisional; Region: PRK06242 290402007912 4Fe-4S binding domain; Region: Fer4; pfam00037 290402007913 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 290402007914 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402007915 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402007916 ligand binding site [chemical binding]; other site 290402007917 calcium binding site [ion binding]; other site 290402007918 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 290402007919 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 290402007920 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 290402007921 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 290402007922 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290402007923 Walker A motif; other site 290402007924 ATP binding site [chemical binding]; other site 290402007925 Walker B motif; other site 290402007926 arginine finger; other site 290402007927 PRD domain; Region: PRD; pfam00874 290402007928 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 290402007929 active pocket/dimerization site; other site 290402007930 active site 290402007931 phosphorylation site [posttranslational modification] 290402007932 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 290402007933 active site 290402007934 phosphorylation site [posttranslational modification] 290402007935 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 290402007936 active site 290402007937 phosphorylation site [posttranslational modification] 290402007938 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 290402007939 active site 290402007940 P-loop; other site 290402007941 phosphorylation site [posttranslational modification] 290402007942 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 290402007943 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 290402007944 Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner; Region: G1PDH; cd08175 290402007945 active site 290402007946 metal binding site [ion binding]; metal-binding site 290402007947 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 290402007948 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 290402007949 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 290402007950 active site 290402007951 motif I; other site 290402007952 motif II; other site 290402007953 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 290402007954 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 290402007955 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 290402007956 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 290402007957 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402007958 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 290402007959 dimer interface [polypeptide binding]; other site 290402007960 phosphorylation site [posttranslational modification] 290402007961 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402007962 ATP binding site [chemical binding]; other site 290402007963 Mg2+ binding site [ion binding]; other site 290402007964 G-X-G motif; other site 290402007965 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402007966 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402007967 ligand binding site [chemical binding]; other site 290402007968 calcium binding site [ion binding]; other site 290402007969 Transposase domain (DUF772); Region: DUF772; pfam05598 290402007970 Uncharacterized conserved protein [Function unknown]; Region: COG0397 290402007971 hypothetical protein; Validated; Region: PRK00029 290402007972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 290402007973 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 290402007974 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 290402007975 dimer interface [polypeptide binding]; other site 290402007976 conserved gate region; other site 290402007977 putative PBP binding loops; other site 290402007978 ABC-ATPase subunit interface; other site 290402007979 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 290402007980 dimer interface [polypeptide binding]; other site 290402007981 conserved gate region; other site 290402007982 putative PBP binding loops; other site 290402007983 ABC-ATPase subunit interface; other site 290402007984 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290402007985 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290402007986 Walker A/P-loop; other site 290402007987 ATP binding site [chemical binding]; other site 290402007988 Q-loop/lid; other site 290402007989 ABC transporter signature motif; other site 290402007990 Walker B; other site 290402007991 D-loop; other site 290402007992 H-loop/switch region; other site 290402007993 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 290402007994 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 290402007995 substrate binding pocket [chemical binding]; other site 290402007996 membrane-bound complex binding site; other site 290402007997 hinge residues; other site 290402007998 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 290402007999 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402008000 Zn2+ binding site [ion binding]; other site 290402008001 Mg2+ binding site [ion binding]; other site 290402008002 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290402008003 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 290402008004 PAS fold; Region: PAS; pfam00989 290402008005 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 290402008006 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 290402008007 dimer interface [polypeptide binding]; other site 290402008008 phosphorylation site [posttranslational modification] 290402008009 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402008010 ATP binding site [chemical binding]; other site 290402008011 Mg2+ binding site [ion binding]; other site 290402008012 G-X-G motif; other site 290402008013 Response regulator receiver domain; Region: Response_reg; pfam00072 290402008014 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402008015 active site 290402008016 phosphorylation site [posttranslational modification] 290402008017 intermolecular recognition site; other site 290402008018 dimerization interface [polypeptide binding]; other site 290402008019 Response regulator receiver domain; Region: Response_reg; pfam00072 290402008020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402008021 active site 290402008022 phosphorylation site [posttranslational modification] 290402008023 intermolecular recognition site; other site 290402008024 dimerization interface [polypeptide binding]; other site 290402008025 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 290402008026 putative binding surface; other site 290402008027 active site 290402008028 Response regulator receiver domain; Region: Response_reg; pfam00072 290402008029 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402008030 active site 290402008031 phosphorylation site [posttranslational modification] 290402008032 intermolecular recognition site; other site 290402008033 dimerization interface [polypeptide binding]; other site 290402008034 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290402008035 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 290402008036 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 290402008037 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290402008038 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 290402008039 propionate catabolism operon regulatory protein PrpR; Region: propionate_PrpR; TIGR02329 290402008040 Propionate catabolism activator; Region: PrpR_N; pfam06506 290402008041 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290402008042 ribonucleoside-triphosphate reductase, adenosylcobalamin-dependent; Region: RTPR; TIGR02505 290402008043 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 290402008044 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290402008045 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 290402008046 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 290402008047 4Fe-4S binding domain; Region: Fer4; pfam00037 290402008048 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 290402008049 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 290402008050 active site 290402008051 motif I; other site 290402008052 motif II; other site 290402008053 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 290402008054 3D domain; Region: 3D; cl01439 290402008055 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 290402008056 Uncharacterized conserved protein [Function unknown]; Region: COG3287 290402008057 FIST N domain; Region: FIST; pfam08495 290402008058 FIST C domain; Region: FIST_C; pfam10442 290402008059 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402008060 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402008061 metal binding site [ion binding]; metal-binding site 290402008062 active site 290402008063 I-site; other site 290402008064 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 290402008065 Predicted membrane protein [Function unknown]; Region: COG2860 290402008066 UPF0126 domain; Region: UPF0126; pfam03458 290402008067 UPF0126 domain; Region: UPF0126; pfam03458 290402008068 FtsH Extracellular; Region: FtsH_ext; pfam06480 290402008069 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 290402008070 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 290402008071 Walker A motif; other site 290402008072 ATP binding site [chemical binding]; other site 290402008073 Walker B motif; other site 290402008074 arginine finger; other site 290402008075 Peptidase family M41; Region: Peptidase_M41; pfam01434 290402008076 GtrA-like protein; Region: GtrA; pfam04138 290402008077 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 290402008078 dimer interface [polypeptide binding]; other site 290402008079 catalytic triad [active] 290402008080 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 290402008081 NlpC/P60 family; Region: NLPC_P60; pfam00877 290402008082 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 290402008083 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 290402008084 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 290402008085 G1 box; other site 290402008086 GTP/Mg2+ binding site [chemical binding]; other site 290402008087 Switch I region; other site 290402008088 G2 box; other site 290402008089 G3 box; other site 290402008090 Switch II region; other site 290402008091 G4 box; other site 290402008092 G5 box; other site 290402008093 Nucleoside recognition; Region: Gate; pfam07670 290402008094 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 290402008095 Nucleoside recognition; Region: Gate; pfam07670 290402008096 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 290402008097 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 290402008098 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 290402008099 active site 290402008100 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 290402008101 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 290402008102 FeS/SAM binding site; other site 290402008103 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 290402008104 GTP cyclohydrolase I; Provisional; Region: PLN03044 290402008105 active site 290402008106 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 290402008107 Ligand Binding Site [chemical binding]; other site 290402008108 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 290402008109 HI0933-like protein; Region: HI0933_like; pfam03486 290402008110 cytidylate kinase; Provisional; Region: cmk; PRK00023 290402008111 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 290402008112 CMP-binding site; other site 290402008113 The sites determining sugar specificity; other site 290402008114 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 290402008115 LytB protein; Region: LYTB; cl00507 290402008116 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 290402008117 RNA binding site [nucleotide binding]; other site 290402008118 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 290402008119 RNA binding site [nucleotide binding]; other site 290402008120 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 290402008121 RNA binding site [nucleotide binding]; other site 290402008122 S1_RPS1_repeat_hs4: 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_hs4; cd05692 290402008123 RNA binding site [nucleotide binding]; other site 290402008124 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 290402008125 dimer interface [polypeptide binding]; other site 290402008126 ADP-ribose binding site [chemical binding]; other site 290402008127 active site 290402008128 nudix motif; other site 290402008129 metal binding site [ion binding]; metal-binding site 290402008130 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 290402008131 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 290402008132 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 290402008133 Walker A motif; other site 290402008134 ATP binding site [chemical binding]; other site 290402008135 Walker B motif; other site 290402008136 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 290402008137 Ferritin-like domain; Region: Ferritin; pfam00210 290402008138 ferroxidase diiron center [ion binding]; other site 290402008139 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290402008140 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290402008141 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290402008142 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402008143 Coenzyme A binding pocket [chemical binding]; other site 290402008144 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 290402008145 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 290402008146 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 290402008147 FeS/SAM binding site; other site 290402008148 TRAM domain; Region: TRAM; pfam01938 290402008149 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 290402008150 putative deacylase active site [active] 290402008151 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 290402008152 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 290402008153 active site 290402008154 DNA binding site [nucleotide binding] 290402008155 Int/Topo IB signature motif; other site 290402008156 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 290402008157 GAF domain; Region: GAF_2; pfam13185 290402008158 LexA repressor; Validated; Region: PRK00215 290402008159 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 290402008160 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 290402008161 Catalytic site [active] 290402008162 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 290402008163 Aluminium resistance protein; Region: Alum_res; pfam06838 290402008164 bacterial Hfq-like; Region: Hfq; cd01716 290402008165 hexamer interface [polypeptide binding]; other site 290402008166 Sm1 motif; other site 290402008167 RNA binding site [nucleotide binding]; other site 290402008168 Sm2 motif; other site 290402008169 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 290402008170 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 290402008171 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 290402008172 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 290402008173 ATP binding site [chemical binding]; other site 290402008174 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 290402008175 Methyltransferase domain; Region: Methyltransf_31; pfam13847 290402008176 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 290402008177 S-adenosylmethionine binding site [chemical binding]; other site 290402008178 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 290402008179 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 290402008180 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290402008181 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 290402008182 MutS domain I; Region: MutS_I; pfam01624 290402008183 MutS domain II; Region: MutS_II; pfam05188 290402008184 MutS domain III; Region: MutS_III; pfam05192 290402008185 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 290402008186 Walker A/P-loop; other site 290402008187 ATP binding site [chemical binding]; other site 290402008188 Q-loop/lid; other site 290402008189 ABC transporter signature motif; other site 290402008190 Walker B; other site 290402008191 D-loop; other site 290402008192 H-loop/switch region; other site 290402008193 Acyltransferase family; Region: Acyl_transf_3; pfam01757 290402008194 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 290402008195 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 290402008196 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 290402008197 tetrameric interface [polypeptide binding]; other site 290402008198 activator binding site; other site 290402008199 NADP binding site [chemical binding]; other site 290402008200 substrate binding site [chemical binding]; other site 290402008201 catalytic residues [active] 290402008202 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 290402008203 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 290402008204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402008205 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 290402008206 Walker A/P-loop; other site 290402008207 Walker A/P-loop; other site 290402008208 ATP binding site [chemical binding]; other site 290402008209 ATP binding site [chemical binding]; other site 290402008210 Q-loop/lid; other site 290402008211 ABC transporter signature motif; other site 290402008212 Walker B; other site 290402008213 D-loop; other site 290402008214 H-loop/switch region; other site 290402008215 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 290402008216 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 290402008217 Catalytic site [active] 290402008218 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 290402008219 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 290402008220 active site 290402008221 motif I; other site 290402008222 motif II; other site 290402008223 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 290402008224 motif II; other site 290402008225 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 290402008226 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 290402008227 NAD binding site [chemical binding]; other site 290402008228 substrate binding site [chemical binding]; other site 290402008229 homodimer interface [polypeptide binding]; other site 290402008230 active site 290402008231 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 290402008232 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 290402008233 NADP binding site [chemical binding]; other site 290402008234 active site 290402008235 putative substrate binding site [chemical binding]; other site 290402008236 Uncharacterized conserved protein [Function unknown]; Region: COG3391 290402008237 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 290402008238 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 290402008239 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 290402008240 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290402008241 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 290402008242 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 290402008243 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 290402008244 Probable Catalytic site; other site 290402008245 metal-binding site 290402008246 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290402008247 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 290402008248 S-adenosylmethionine binding site [chemical binding]; other site 290402008249 Disaggregatase related repeat; Region: Disaggr_repeat; pfam06848 290402008250 Disaggregatase related repeat; Region: Disaggr_repeat; pfam06848 290402008251 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 290402008252 putative metal binding site; other site 290402008253 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 290402008254 binding surface 290402008255 TPR motif; other site 290402008256 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 290402008257 binding surface 290402008258 TPR motif; other site 290402008259 Protein of unknown function (DUF563); Region: DUF563; pfam04577 290402008260 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 290402008261 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 290402008262 active site 290402008263 Protein of unknown function (DUF1614); Region: DUF1614; cl15407 290402008264 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 290402008265 active site 290402008266 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 290402008267 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 290402008268 putative trimer interface [polypeptide binding]; other site 290402008269 putative CoA binding site [chemical binding]; other site 290402008270 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 290402008271 S-adenosylmethionine binding site [chemical binding]; other site 290402008272 WxcM-like, C-terminal; Region: FdtA; pfam05523 290402008273 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 290402008274 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 290402008275 inhibitor-cofactor binding pocket; inhibition site 290402008276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402008277 catalytic residue [active] 290402008278 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 290402008279 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290402008280 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 290402008281 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 290402008282 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290402008283 catalytic residue [active] 290402008284 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 290402008285 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 290402008286 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 290402008287 substrate binding site; other site 290402008288 tetramer interface; other site 290402008289 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 290402008290 active site 290402008291 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 290402008292 tetramerization interface [polypeptide binding]; other site 290402008293 active site 290402008294 pantoate--beta-alanine ligase; Region: panC; TIGR00018 290402008295 Pantoate-beta-alanine ligase; Region: PanC; cd00560 290402008296 active site 290402008297 ATP-binding site [chemical binding]; other site 290402008298 pantoate-binding site; other site 290402008299 HXXH motif; other site 290402008300 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 290402008301 oligomerization interface [polypeptide binding]; other site 290402008302 active site 290402008303 metal binding site [ion binding]; metal-binding site 290402008304 Rossmann-like domain; Region: Rossmann-like; pfam10727 290402008305 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 290402008306 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 290402008307 active site 290402008308 metal binding site [ion binding]; metal-binding site 290402008309 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 290402008310 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402008311 YvrJ protein family; Region: YvrJ; pfam12841 290402008312 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 290402008313 S-adenosylmethionine binding site [chemical binding]; other site 290402008314 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 290402008315 putative active site [active] 290402008316 putative metal binding site [ion binding]; other site 290402008317 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 290402008318 Active_site [active] 290402008319 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 290402008320 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 290402008321 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 290402008322 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 290402008323 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 290402008324 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 290402008325 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 290402008326 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 290402008327 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290402008328 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290402008329 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290402008330 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290402008331 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 290402008332 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 290402008333 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 290402008334 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 290402008335 Int/Topo IB signature motif; other site 290402008336 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 290402008337 MgtC family; Region: MgtC; pfam02308 290402008338 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 290402008339 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 290402008340 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 290402008341 ATP binding site [chemical binding]; other site 290402008342 putative Mg++ binding site [ion binding]; other site 290402008343 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 290402008344 nucleotide binding region [chemical binding]; other site 290402008345 ATP-binding site [chemical binding]; other site 290402008346 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 290402008347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402008348 Walker A/P-loop; other site 290402008349 ATP binding site [chemical binding]; other site 290402008350 Q-loop/lid; other site 290402008351 ABC transporter signature motif; other site 290402008352 Walker B; other site 290402008353 D-loop; other site 290402008354 H-loop/switch region; other site 290402008355 ABC transporter; Region: ABC_tran_2; pfam12848 290402008356 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402008357 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 290402008358 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290402008359 PYR/PP interface [polypeptide binding]; other site 290402008360 dimer interface [polypeptide binding]; other site 290402008361 TPP binding site [chemical binding]; other site 290402008362 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290402008363 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 290402008364 TPP-binding site [chemical binding]; other site 290402008365 dimer interface [polypeptide binding]; other site 290402008366 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 290402008367 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 290402008368 putative valine binding site [chemical binding]; other site 290402008369 dimer interface [polypeptide binding]; other site 290402008370 Predicted membrane protein [Function unknown]; Region: COG2717 290402008371 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402008372 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290402008373 Walker A/P-loop; other site 290402008374 ATP binding site [chemical binding]; other site 290402008375 Q-loop/lid; other site 290402008376 ABC transporter signature motif; other site 290402008377 Walker B; other site 290402008378 D-loop; other site 290402008379 H-loop/switch region; other site 290402008380 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290402008381 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 290402008382 FtsX-like permease family; Region: FtsX; pfam02687 290402008383 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 290402008384 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 290402008385 Tetratricopeptide repeat; Region: TPR_12; pfam13424 290402008386 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 290402008387 TPR motif; other site 290402008388 binding surface 290402008389 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 290402008390 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290402008391 Cupin domain; Region: Cupin_2; pfam07883 290402008392 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402008393 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402008394 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402008395 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 290402008396 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 290402008397 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 290402008398 RNA binding surface [nucleotide binding]; other site 290402008399 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 290402008400 active site 290402008401 uracil binding [chemical binding]; other site 290402008402 Uncharacterized conserved protein [Function unknown]; Region: COG3589 290402008403 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 290402008404 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 290402008405 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 290402008406 active site 290402008407 metal binding site [ion binding]; metal-binding site 290402008408 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 290402008409 methionine cluster; other site 290402008410 active site 290402008411 phosphorylation site [posttranslational modification] 290402008412 metal binding site [ion binding]; metal-binding site 290402008413 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 290402008414 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 290402008415 NAD binding site [chemical binding]; other site 290402008416 sugar binding site [chemical binding]; other site 290402008417 divalent metal binding site [ion binding]; other site 290402008418 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402008419 dimer interface [polypeptide binding]; other site 290402008420 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 290402008421 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 290402008422 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 290402008423 active site 290402008424 P-loop; other site 290402008425 phosphorylation site [posttranslational modification] 290402008426 Fatty acid desaturase; Region: FA_desaturase; pfam00487 290402008427 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 290402008428 putative di-iron ligands [ion binding]; other site 290402008429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 290402008430 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 290402008431 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290402008432 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402008433 Walker A/P-loop; other site 290402008434 ATP binding site [chemical binding]; other site 290402008435 Q-loop/lid; other site 290402008436 ABC transporter signature motif; other site 290402008437 Walker B; other site 290402008438 D-loop; other site 290402008439 H-loop/switch region; other site 290402008440 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 290402008441 SPFH domain / Band 7 family; Region: Band_7; pfam01145 290402008442 SWIM zinc finger; Region: SWIM; pfam04434 290402008443 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 290402008444 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 290402008445 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 290402008446 ATP binding site [chemical binding]; other site 290402008447 putative Mg++ binding site [ion binding]; other site 290402008448 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 290402008449 nucleotide binding region [chemical binding]; other site 290402008450 ATP-binding site [chemical binding]; other site 290402008451 Flagellin N-methylase; Region: FliB; cl00497 290402008452 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 290402008453 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 290402008454 Coagulation factor 5/8 C-terminal domain, discoidin domain; Region: FA58C; smart00231 290402008455 sugar binding site [chemical binding]; other site 290402008456 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 290402008457 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 290402008458 active site 290402008459 catalytic tetrad [active] 290402008460 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 290402008461 Pirin; Region: Pirin; pfam02678 290402008462 Pirin-related protein [General function prediction only]; Region: COG1741 290402008463 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 290402008464 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 290402008465 dimer interface [polypeptide binding]; other site 290402008466 catalytic triad [active] 290402008467 peroxidatic and resolving cysteines [active] 290402008468 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 290402008469 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402008470 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 290402008471 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402008472 Zn2+ binding site [ion binding]; other site 290402008473 Mg2+ binding site [ion binding]; other site 290402008474 CAAX protease self-immunity; Region: Abi; pfam02517 290402008475 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 290402008476 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 290402008477 DNA binding residues [nucleotide binding] 290402008478 drug binding residues [chemical binding]; other site 290402008479 dimer interface [polypeptide binding]; other site 290402008480 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 290402008481 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402008482 Coenzyme A binding pocket [chemical binding]; other site 290402008483 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 290402008484 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402008485 Coenzyme A binding pocket [chemical binding]; other site 290402008486 TIGR04076 family protein; Region: TIGR04076 290402008487 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290402008488 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 290402008489 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 290402008490 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 290402008491 motif II; other site 290402008492 Cupin domain; Region: Cupin_2; cl17218 290402008493 hypothetical protein; Provisional; Region: PRK06762 290402008494 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 290402008495 dimer interface [polypeptide binding]; other site 290402008496 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290402008497 ligand binding site [chemical binding]; other site 290402008498 RNA polymerase sigma factor; Provisional; Region: PRK11924 290402008499 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402008500 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 290402008501 DNA binding residues [nucleotide binding] 290402008502 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 290402008503 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402008504 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402008505 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290402008506 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402008507 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290402008508 RDD family; Region: RDD; pfam06271 290402008509 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 290402008510 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 290402008511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402008512 homodimer interface [polypeptide binding]; other site 290402008513 catalytic residue [active] 290402008514 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290402008515 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290402008516 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 290402008517 active site 290402008518 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 290402008519 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 290402008520 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 290402008521 active site 290402008522 P-loop; other site 290402008523 phosphorylation site [posttranslational modification] 290402008524 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 290402008525 active site 290402008526 methionine cluster; other site 290402008527 phosphorylation site [posttranslational modification] 290402008528 metal binding site [ion binding]; metal-binding site 290402008529 exoaminopeptidase; Provisional; Region: PRK09961 290402008530 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 290402008531 oligomer interface [polypeptide binding]; other site 290402008532 active site 290402008533 metal binding site [ion binding]; metal-binding site 290402008534 HTH domain; Region: HTH_11; pfam08279 290402008535 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 290402008536 PRD domain; Region: PRD; pfam00874 290402008537 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 290402008538 active site 290402008539 P-loop; other site 290402008540 phosphorylation site [posttranslational modification] 290402008541 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 290402008542 active site 290402008543 phosphorylation site [posttranslational modification] 290402008544 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 290402008545 Palmitoyl protein thioesterase; Region: Palm_thioest; cl15849 290402008546 Uncharacterized conserved protein [Function unknown]; Region: COG1359 290402008547 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 290402008548 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 290402008549 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 290402008550 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 290402008551 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 290402008552 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 290402008553 DNA binding residues [nucleotide binding] 290402008554 dimer interface [polypeptide binding]; other site 290402008555 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 290402008556 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402008557 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 290402008558 non-specific DNA binding site [nucleotide binding]; other site 290402008559 salt bridge; other site 290402008560 sequence-specific DNA binding site [nucleotide binding]; other site 290402008561 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 290402008562 binding surface 290402008563 TPR motif; other site 290402008564 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 290402008565 Part of AAA domain; Region: AAA_19; pfam13245 290402008566 Family description; Region: UvrD_C_2; pfam13538 290402008567 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402008568 active site 290402008569 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402008570 phosphorylation site [posttranslational modification] 290402008571 intermolecular recognition site; other site 290402008572 dimerization interface [polypeptide binding]; other site 290402008573 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 290402008574 dimer interface [polypeptide binding]; other site 290402008575 phosphorylation site [posttranslational modification] 290402008576 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402008577 ATP binding site [chemical binding]; other site 290402008578 Mg2+ binding site [ion binding]; other site 290402008579 G-X-G motif; other site 290402008580 Response regulator receiver domain; Region: Response_reg; pfam00072 290402008581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402008582 active site 290402008583 phosphorylation site [posttranslational modification] 290402008584 intermolecular recognition site; other site 290402008585 dimerization interface [polypeptide binding]; other site 290402008586 Response regulator receiver domain; Region: Response_reg; pfam00072 290402008587 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402008588 active site 290402008589 phosphorylation site [posttranslational modification] 290402008590 intermolecular recognition site; other site 290402008591 dimerization interface [polypeptide binding]; other site 290402008592 HDOD domain; Region: HDOD; pfam08668 290402008593 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 290402008594 PAS domain; Region: PAS_9; pfam13426 290402008595 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 290402008596 putative active site [active] 290402008597 heme pocket [chemical binding]; other site 290402008598 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402008599 ATP binding site [chemical binding]; other site 290402008600 Mg2+ binding site [ion binding]; other site 290402008601 G-X-G motif; other site 290402008602 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 290402008603 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 290402008604 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290402008605 PYR/PP interface [polypeptide binding]; other site 290402008606 dimer interface [polypeptide binding]; other site 290402008607 TPP binding site [chemical binding]; other site 290402008608 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290402008609 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 290402008610 TPP-binding site [chemical binding]; other site 290402008611 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 290402008612 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 290402008613 active site 290402008614 FMN binding site [chemical binding]; other site 290402008615 substrate binding site [chemical binding]; other site 290402008616 putative catalytic residue [active] 290402008617 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290402008618 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402008619 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402008620 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 290402008621 dimer interface [polypeptide binding]; other site 290402008622 phosphorylation site [posttranslational modification] 290402008623 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402008624 ATP binding site [chemical binding]; other site 290402008625 Mg2+ binding site [ion binding]; other site 290402008626 G-X-G motif; other site 290402008627 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402008628 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402008629 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402008630 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402008631 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 290402008632 multifunctional aminopeptidase A; Provisional; Region: PRK00913 290402008633 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 290402008634 interface (dimer of trimers) [polypeptide binding]; other site 290402008635 Substrate-binding/catalytic site; other site 290402008636 Zn-binding sites [ion binding]; other site 290402008637 HTH domain; Region: HTH_11; cl17392 290402008638 Mga helix-turn-helix domain; Region: Mga; pfam05043 290402008639 transcriptional antiterminator BglG; Provisional; Region: PRK09772 290402008640 PRD domain; Region: PRD; pfam00874 290402008641 PRD domain; Region: PRD; pfam00874 290402008642 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 290402008643 active site 290402008644 P-loop; other site 290402008645 phosphorylation site [posttranslational modification] 290402008646 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 290402008647 active site 290402008648 phosphorylation site [posttranslational modification] 290402008649 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 290402008650 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 290402008651 active site 290402008652 P-loop; other site 290402008653 phosphorylation site [posttranslational modification] 290402008654 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 290402008655 active site 290402008656 phosphorylation site [posttranslational modification] 290402008657 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 290402008658 active site 290402008659 intersubunit interactions; other site 290402008660 catalytic residue [active] 290402008661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402008662 Coenzyme A binding pocket [chemical binding]; other site 290402008663 DNA gyrase/topoisomerase IV, subunit A; Region: DNA_topoisoIV; pfam00521 290402008664 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 290402008665 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 290402008666 metal ion-dependent adhesion site (MIDAS); other site 290402008667 MoxR-like ATPases [General function prediction only]; Region: COG0714 290402008668 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 290402008669 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; pfam10020 290402008670 HEAT repeats; Region: HEAT_2; pfam13646 290402008671 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 290402008672 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 290402008673 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 290402008674 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 290402008675 dimer interface [polypeptide binding]; other site 290402008676 active site 290402008677 metal binding site [ion binding]; metal-binding site 290402008678 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 290402008679 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290402008680 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 290402008681 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 290402008682 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 290402008683 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 290402008684 carboxyltransferase (CT) interaction site; other site 290402008685 biotinylation site [posttranslational modification]; other site 290402008686 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 290402008687 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 290402008688 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 290402008689 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 290402008690 alanine racemase; Reviewed; Region: alr; PRK00053 290402008691 active site 290402008692 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290402008693 dimer interface [polypeptide binding]; other site 290402008694 substrate binding site [chemical binding]; other site 290402008695 catalytic residues [active] 290402008696 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 290402008697 putative active site [active] 290402008698 hypothetical protein; Provisional; Region: PRK05463 290402008699 Domain of unknown function (DUF4392); Region: DUF4392; pfam14336 290402008700 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 290402008701 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 290402008702 homodimer interface [polypeptide binding]; other site 290402008703 substrate-cofactor binding pocket; other site 290402008704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402008705 catalytic residue [active] 290402008706 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290402008707 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 290402008708 AsnC family; Region: AsnC_trans_reg; pfam01037 290402008709 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 290402008710 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 290402008711 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 290402008712 Walker A/P-loop; other site 290402008713 ATP binding site [chemical binding]; other site 290402008714 Q-loop/lid; other site 290402008715 ABC transporter signature motif; other site 290402008716 Walker B; other site 290402008717 D-loop; other site 290402008718 H-loop/switch region; other site 290402008719 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 290402008720 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 290402008721 Walker A/P-loop; other site 290402008722 ATP binding site [chemical binding]; other site 290402008723 Q-loop/lid; other site 290402008724 ABC transporter signature motif; other site 290402008725 Walker B; other site 290402008726 D-loop; other site 290402008727 H-loop/switch region; other site 290402008728 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 290402008729 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 290402008730 TM-ABC transporter signature motif; other site 290402008731 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402008732 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 290402008733 TM-ABC transporter signature motif; other site 290402008734 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 290402008735 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 290402008736 putative ligand binding site [chemical binding]; other site 290402008737 Uncharacterized conserved protein [Function unknown]; Region: COG3287 290402008738 FIST N domain; Region: FIST; pfam08495 290402008739 FIST C domain; Region: FIST_C; pfam10442 290402008740 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402008741 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402008742 dimer interface [polypeptide binding]; other site 290402008743 putative CheW interface [polypeptide binding]; other site 290402008744 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 290402008745 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402008746 Walker A/P-loop; other site 290402008747 ATP binding site [chemical binding]; other site 290402008748 Q-loop/lid; other site 290402008749 ABC transporter signature motif; other site 290402008750 Walker B; other site 290402008751 D-loop; other site 290402008752 H-loop/switch region; other site 290402008753 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402008754 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 290402008755 putative active site [active] 290402008756 putative metal binding site [ion binding]; other site 290402008757 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 290402008758 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 290402008759 active site 290402008760 8-oxo-dGMP binding site [chemical binding]; other site 290402008761 nudix motif; other site 290402008762 metal binding site [ion binding]; metal-binding site 290402008763 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290402008764 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 290402008765 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402008766 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 290402008767 dimer interface [polypeptide binding]; other site 290402008768 FMN binding site [chemical binding]; other site 290402008769 NADPH bind site [chemical binding]; other site 290402008770 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 290402008771 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 290402008772 ATP binding site [chemical binding]; other site 290402008773 Mg++ binding site [ion binding]; other site 290402008774 motif III; other site 290402008775 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 290402008776 nucleotide binding region [chemical binding]; other site 290402008777 ATP-binding site [chemical binding]; other site 290402008778 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 290402008779 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 290402008780 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 290402008781 active site 290402008782 motif I; other site 290402008783 motif II; other site 290402008784 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290402008785 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290402008786 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 290402008787 DHHW protein; Region: DHHW; pfam14286 290402008788 Response regulator receiver domain; Region: Response_reg; pfam00072 290402008789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402008790 active site 290402008791 phosphorylation site [posttranslational modification] 290402008792 intermolecular recognition site; other site 290402008793 dimerization interface [polypeptide binding]; other site 290402008794 PAS domain; Region: PAS_9; pfam13426 290402008795 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 290402008796 PAS fold; Region: PAS_3; pfam08447 290402008797 putative active site [active] 290402008798 heme pocket [chemical binding]; other site 290402008799 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402008800 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 290402008801 dimer interface [polypeptide binding]; other site 290402008802 phosphorylation site [posttranslational modification] 290402008803 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402008804 ATP binding site [chemical binding]; other site 290402008805 Mg2+ binding site [ion binding]; other site 290402008806 G-X-G motif; other site 290402008807 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402008808 HAMP domain; Region: HAMP; pfam00672 290402008809 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402008810 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402008811 dimer interface [polypeptide binding]; other site 290402008812 putative CheW interface [polypeptide binding]; other site 290402008813 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 290402008814 DNA-binding site [nucleotide binding]; DNA binding site 290402008815 RNA-binding motif; other site 290402008816 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 290402008817 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402008818 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 290402008819 NAD binding site [chemical binding]; other site 290402008820 dimer interface [polypeptide binding]; other site 290402008821 substrate binding site [chemical binding]; other site 290402008822 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 290402008823 zinc binding site [ion binding]; other site 290402008824 putative ligand binding site [chemical binding]; other site 290402008825 YhhN-like protein; Region: YhhN; cl01505 290402008826 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 290402008827 homodimer interface [polypeptide binding]; other site 290402008828 chemical substrate binding site [chemical binding]; other site 290402008829 oligomer interface [polypeptide binding]; other site 290402008830 metal binding site [ion binding]; metal-binding site 290402008831 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402008832 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402008833 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402008834 Walker A/P-loop; other site 290402008835 ATP binding site [chemical binding]; other site 290402008836 Q-loop/lid; other site 290402008837 ABC transporter signature motif; other site 290402008838 Walker B; other site 290402008839 D-loop; other site 290402008840 H-loop/switch region; other site 290402008841 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402008842 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402008843 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 290402008844 Walker A/P-loop; other site 290402008845 ATP binding site [chemical binding]; other site 290402008846 Q-loop/lid; other site 290402008847 ABC transporter signature motif; other site 290402008848 Walker B; other site 290402008849 D-loop; other site 290402008850 H-loop/switch region; other site 290402008851 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 290402008852 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 290402008853 putative active site [active] 290402008854 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 290402008855 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 290402008856 catalytic core [active] 290402008857 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 290402008858 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 290402008859 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 290402008860 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 290402008861 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 290402008862 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290402008863 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290402008864 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290402008865 TIR domain; Region: TIR_2; pfam13676 290402008866 TIR domain; Region: TIR_2; pfam13676 290402008867 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 290402008868 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 290402008869 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 290402008870 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 290402008871 PLD-like domain; Region: PLDc_2; pfam13091 290402008872 putative homodimer interface [polypeptide binding]; other site 290402008873 putative active site [active] 290402008874 catalytic site [active] 290402008875 DEAD-like helicases superfamily; Region: DEXDc; smart00487 290402008876 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 290402008877 ATP binding site [chemical binding]; other site 290402008878 putative Mg++ binding site [ion binding]; other site 290402008879 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 290402008880 nucleotide binding region [chemical binding]; other site 290402008881 ATP-binding site [chemical binding]; other site 290402008882 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 290402008883 metal binding site [ion binding]; metal-binding site 290402008884 Methyltransferase domain; Region: Methyltransf_31; pfam13847 290402008885 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 290402008886 S-adenosylmethionine binding site [chemical binding]; other site 290402008887 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 290402008888 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402008889 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402008890 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 290402008891 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 290402008892 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 290402008893 Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the...; Region: Elongation_Factor_C; cl02785 290402008894 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 290402008895 Nuclease-related domain; Region: NERD; pfam08378 290402008896 Beta/Gamma crystallin; Region: Crystall; cl02528 290402008897 glycosyl hydrolase 64 family; Region: GH64-like; cd09214 290402008898 substrate binding pocket [chemical binding]; other site 290402008899 catalytic residues [active] 290402008900 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 290402008901 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 290402008902 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 290402008903 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 290402008904 active site 290402008905 catalytic residues [active] 290402008906 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 290402008907 Interdomain contacts; other site 290402008908 Cytokine receptor motif; other site 290402008909 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 290402008910 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 290402008911 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402008912 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 290402008913 Glyco_18 domain; Region: Glyco_18; smart00636 290402008914 active site 290402008915 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 290402008916 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 290402008917 aromatic chitin/cellulose binding site residues [chemical binding]; other site 290402008918 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 290402008919 aromatic chitin/cellulose binding site residues [chemical binding]; other site 290402008920 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 290402008921 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 290402008922 aromatic chitin/cellulose binding site residues [chemical binding]; other site 290402008923 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 290402008924 aromatic chitin/cellulose binding site residues [chemical binding]; other site 290402008925 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 290402008926 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290402008927 catalytic residue [active] 290402008928 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 290402008929 beta-galactosidase; Region: BGL; TIGR03356 290402008930 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 290402008931 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402008932 active site turn [active] 290402008933 phosphorylation site [posttranslational modification] 290402008934 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402008935 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 290402008936 HPr interaction site; other site 290402008937 glycerol kinase (GK) interaction site [polypeptide binding]; other site 290402008938 active site 290402008939 phosphorylation site [posttranslational modification] 290402008940 transcriptional antiterminator BglG; Provisional; Region: PRK09772 290402008941 CAT RNA binding domain; Region: CAT_RBD; smart01061 290402008942 PRD domain; Region: PRD; pfam00874 290402008943 PRD domain; Region: PRD; pfam00874 290402008944 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 290402008945 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402008946 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 290402008947 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402008948 4Fe-4S binding domain; Region: Fer4; cl02805 290402008949 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 290402008950 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 290402008951 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 290402008952 putative DNA binding site [nucleotide binding]; other site 290402008953 putative Zn2+ binding site [ion binding]; other site 290402008954 HAMP domain; Region: HAMP; pfam00672 290402008955 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402008956 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402008957 dimer interface [polypeptide binding]; other site 290402008958 putative CheW interface [polypeptide binding]; other site 290402008959 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 290402008960 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 290402008961 putative active site [active] 290402008962 metal binding site [ion binding]; metal-binding site 290402008963 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 290402008964 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 290402008965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 290402008966 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 290402008967 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 290402008968 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290402008969 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 290402008970 Walker A/P-loop; other site 290402008971 ATP binding site [chemical binding]; other site 290402008972 Q-loop/lid; other site 290402008973 ABC transporter signature motif; other site 290402008974 Walker B; other site 290402008975 D-loop; other site 290402008976 H-loop/switch region; other site 290402008977 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402008978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402008979 active site 290402008980 phosphorylation site [posttranslational modification] 290402008981 intermolecular recognition site; other site 290402008982 dimerization interface [polypeptide binding]; other site 290402008983 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 290402008984 DNA binding site [nucleotide binding] 290402008985 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402008986 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 290402008987 dimer interface [polypeptide binding]; other site 290402008988 phosphorylation site [posttranslational modification] 290402008989 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402008990 ATP binding site [chemical binding]; other site 290402008991 Mg2+ binding site [ion binding]; other site 290402008992 G-X-G motif; other site 290402008993 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402008994 HAMP domain; Region: HAMP; pfam00672 290402008995 dimerization interface [polypeptide binding]; other site 290402008996 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402008997 dimer interface [polypeptide binding]; other site 290402008998 putative CheW interface [polypeptide binding]; other site 290402008999 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 290402009000 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 290402009001 Isochorismatase family; Region: Isochorismatase; pfam00857 290402009002 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 290402009003 catalytic triad [active] 290402009004 conserved cis-peptide bond; other site 290402009005 drug efflux system protein MdtG; Provisional; Region: PRK09874 290402009006 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402009007 putative substrate translocation pore; other site 290402009008 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402009009 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402009010 WHG domain; Region: WHG; pfam13305 290402009011 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 290402009012 metal binding site [ion binding]; metal-binding site 290402009013 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 290402009014 active site 290402009015 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 290402009016 S-adenosylmethionine binding site [chemical binding]; other site 290402009017 PAS domain S-box; Region: sensory_box; TIGR00229 290402009018 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 290402009019 putative active site [active] 290402009020 heme pocket [chemical binding]; other site 290402009021 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402009022 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402009023 metal binding site [ion binding]; metal-binding site 290402009024 active site 290402009025 I-site; other site 290402009026 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 290402009027 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290402009028 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402009029 Transposase domain (DUF772); Region: DUF772; pfam05598 290402009030 Epoxide hydrolase N terminus; Region: EHN; pfam06441 290402009031 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290402009032 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290402009033 Protein export membrane protein; Region: SecD_SecF; cl14618 290402009034 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290402009035 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290402009036 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402009037 putative membrane fusion protein; Region: TIGR02828 290402009038 Outer membrane efflux protein; Region: OEP; pfam02321 290402009039 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402009040 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402009041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402009042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402009043 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 290402009044 dimerization interface [polypeptide binding]; other site 290402009045 acetolactate synthase; Reviewed; Region: PRK08322 290402009046 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290402009047 PYR/PP interface [polypeptide binding]; other site 290402009048 dimer interface [polypeptide binding]; other site 290402009049 TPP binding site [chemical binding]; other site 290402009050 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290402009051 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 290402009052 TPP-binding site [chemical binding]; other site 290402009053 dimer interface [polypeptide binding]; other site 290402009054 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290402009055 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 290402009056 dimer interface [polypeptide binding]; other site 290402009057 conserved gate region; other site 290402009058 putative PBP binding loops; other site 290402009059 ABC-ATPase subunit interface; other site 290402009060 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 290402009061 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 290402009062 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 290402009063 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 290402009064 Walker A/P-loop; other site 290402009065 ATP binding site [chemical binding]; other site 290402009066 Q-loop/lid; other site 290402009067 ABC transporter signature motif; other site 290402009068 Walker B; other site 290402009069 D-loop; other site 290402009070 H-loop/switch region; other site 290402009071 FOG: CBS domain [General function prediction only]; Region: COG0517 290402009072 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_assoc2; cd04583 290402009073 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290402009074 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402009075 DNA-binding site [nucleotide binding]; DNA binding site 290402009076 TrkA-C domain; Region: TrkA_C; pfam02080 290402009077 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 290402009078 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 290402009079 NodB motif; other site 290402009080 active site 290402009081 catalytic site [active] 290402009082 Zn binding site [ion binding]; other site 290402009083 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290402009084 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290402009085 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290402009086 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402009087 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402009088 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402009089 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 290402009090 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 290402009091 Transposase domain (DUF772); Region: DUF772; pfam05598 290402009092 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 290402009093 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290402009094 putative NAD(P) binding site [chemical binding]; other site 290402009095 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 290402009096 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 290402009097 active site 290402009098 catalytic tetrad [active] 290402009099 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 290402009100 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 290402009101 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290402009102 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 290402009103 FAD binding site [chemical binding]; other site 290402009104 homotetramer interface [polypeptide binding]; other site 290402009105 substrate binding pocket [chemical binding]; other site 290402009106 catalytic base [active] 290402009107 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290402009108 FAD binding domain; Region: FAD_binding_4; pfam01565 290402009109 L-lactate permease; Region: Lactate_perm; cl00701 290402009110 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 290402009111 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 290402009112 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 290402009113 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 290402009114 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 290402009115 Ligand binding site [chemical binding]; other site 290402009116 Electron transfer flavoprotein domain; Region: ETF; pfam01012 290402009117 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 290402009118 FMN binding site [chemical binding]; other site 290402009119 dimer interface [polypeptide binding]; other site 290402009120 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 290402009121 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290402009122 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 290402009123 substrate binding pocket [chemical binding]; other site 290402009124 membrane-bound complex binding site; other site 290402009125 hinge residues; other site 290402009126 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 290402009127 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 290402009128 putative active site [active] 290402009129 putative catalytic site [active] 290402009130 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290402009131 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 290402009132 dimer interface [polypeptide binding]; other site 290402009133 conserved gate region; other site 290402009134 putative PBP binding loops; other site 290402009135 ABC-ATPase subunit interface; other site 290402009136 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 290402009137 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 290402009138 dimer interface [polypeptide binding]; other site 290402009139 conserved gate region; other site 290402009140 putative PBP binding loops; other site 290402009141 ABC-ATPase subunit interface; other site 290402009142 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290402009143 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290402009144 Transposase domain (DUF772); Region: DUF772; pfam05598 290402009145 Response regulator receiver domain; Region: Response_reg; pfam00072 290402009146 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402009147 active site 290402009148 phosphorylation site [posttranslational modification] 290402009149 intermolecular recognition site; other site 290402009150 dimerization interface [polypeptide binding]; other site 290402009151 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290402009152 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402009153 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 290402009154 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 290402009155 Histidine kinase; Region: His_kinase; pfam06580 290402009156 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402009157 ATP binding site [chemical binding]; other site 290402009158 Mg2+ binding site [ion binding]; other site 290402009159 G-X-G motif; other site 290402009160 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 290402009161 CoenzymeA binding site [chemical binding]; other site 290402009162 subunit interaction site [polypeptide binding]; other site 290402009163 PHB binding site; other site 290402009164 PAS fold; Region: PAS_3; pfam08447 290402009165 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402009166 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402009167 metal binding site [ion binding]; metal-binding site 290402009168 active site 290402009169 I-site; other site 290402009170 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 290402009171 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 290402009172 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 290402009173 active site 290402009174 phosphorylation site [posttranslational modification] 290402009175 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290402009176 active site 290402009177 active pocket/dimerization site; other site 290402009178 phosphorylation site [posttranslational modification] 290402009179 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 290402009180 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 290402009181 dimer interface [polypeptide binding]; other site 290402009182 active site 290402009183 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 290402009184 putative active site [active] 290402009185 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290402009186 active pocket/dimerization site; other site 290402009187 active site 290402009188 phosphorylation site [posttranslational modification] 290402009189 PTS system N-acetylgalactosamine-specific transporter subunit IID; Provisional; Region: PRK09855 290402009190 PTS system N-acetylgalactosamine-specific transporter subunit IIC; Provisional; Region: PRK09757 290402009191 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 290402009192 active site 290402009193 phosphorylation site [posttranslational modification] 290402009194 putative acetyltransferase; Provisional; Region: PRK03624 290402009195 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 290402009196 Cache domain; Region: Cache_1; pfam02743 290402009197 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 290402009198 dimerization interface [polypeptide binding]; other site 290402009199 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402009200 dimer interface [polypeptide binding]; other site 290402009201 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 290402009202 putative CheW interface [polypeptide binding]; other site 290402009203 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 290402009204 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402009205 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402009206 ligand binding site [chemical binding]; other site 290402009207 calcium binding site [ion binding]; other site 290402009208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 290402009209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 290402009210 SdiA-regulated; Region: SdiA-regulated; cd09971 290402009211 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290402009212 Protein export membrane protein; Region: SecD_SecF; cl14618 290402009213 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290402009214 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290402009215 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402009216 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402009217 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402009218 active site 290402009219 phosphorylation site [posttranslational modification] 290402009220 intermolecular recognition site; other site 290402009221 dimerization interface [polypeptide binding]; other site 290402009222 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 290402009223 DNA binding site [nucleotide binding] 290402009224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402009225 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 290402009226 dimerization interface [polypeptide binding]; other site 290402009227 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 290402009228 dimer interface [polypeptide binding]; other site 290402009229 phosphorylation site [posttranslational modification] 290402009230 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402009231 ATP binding site [chemical binding]; other site 290402009232 Mg2+ binding site [ion binding]; other site 290402009233 G-X-G motif; other site 290402009234 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402009235 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402009236 putative substrate translocation pore; other site 290402009237 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 290402009238 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290402009239 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402009240 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290402009241 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402009242 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 290402009243 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 290402009244 ATP binding site [chemical binding]; other site 290402009245 Mg++ binding site [ion binding]; other site 290402009246 motif III; other site 290402009247 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 290402009248 nucleotide binding region [chemical binding]; other site 290402009249 ATP-binding site [chemical binding]; other site 290402009250 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 290402009251 RNA binding site [nucleotide binding]; other site 290402009252 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 290402009253 DNA-binding site [nucleotide binding]; DNA binding site 290402009254 RNA-binding motif; other site 290402009255 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290402009256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402009257 DNA-binding site [nucleotide binding]; DNA binding site 290402009258 FCD domain; Region: FCD; pfam07729 290402009259 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290402009260 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290402009261 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290402009262 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402009263 putative membrane fusion protein; Region: TIGR02828 290402009264 Outer membrane efflux protein; Region: OEP; pfam02321 290402009265 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402009266 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402009267 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 290402009268 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402009269 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402009270 metal binding site [ion binding]; metal-binding site 290402009271 active site 290402009272 I-site; other site 290402009273 dihydrodipicolinate reductase; Provisional; Region: PRK00048 290402009274 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 290402009275 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 290402009276 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 290402009277 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402009278 Coenzyme A binding pocket [chemical binding]; other site 290402009279 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 290402009280 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 290402009281 Cl- selectivity filter; other site 290402009282 Cl- binding residues [ion binding]; other site 290402009283 pore gating glutamate residue; other site 290402009284 dimer interface [polypeptide binding]; other site 290402009285 H+/Cl- coupling transport residue; other site 290402009286 TrkA-C domain; Region: TrkA_C; pfam02080 290402009287 short chain dehydrogenase; Provisional; Region: PRK06914 290402009288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290402009289 NAD(P) binding site [chemical binding]; other site 290402009290 active site 290402009291 Predicted membrane protein [Function unknown]; Region: COG2323 290402009292 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 290402009293 DsrE/DsrF-like family; Region: DrsE; cl00672 290402009294 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 290402009295 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402009296 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290402009297 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 290402009298 active site residue [active] 290402009299 SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that...; Region: SirA_RHOD_Pry_redox; cd03420 290402009300 CPxP motif; other site 290402009301 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 290402009302 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 290402009303 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 290402009304 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 290402009305 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 290402009306 Part of AAA domain; Region: AAA_19; pfam13245 290402009307 Family description; Region: UvrD_C_2; pfam13538 290402009308 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 290402009309 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 290402009310 dinuclear metal binding motif [ion binding]; other site 290402009311 HAMP domain; Region: HAMP; pfam00672 290402009312 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402009313 dimerization interface [polypeptide binding]; other site 290402009314 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 290402009315 dimer interface [polypeptide binding]; other site 290402009316 phosphorylation site [posttranslational modification] 290402009317 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402009318 ATP binding site [chemical binding]; other site 290402009319 Mg2+ binding site [ion binding]; other site 290402009320 G-X-G motif; other site 290402009321 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402009322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402009323 active site 290402009324 phosphorylation site [posttranslational modification] 290402009325 intermolecular recognition site; other site 290402009326 dimerization interface [polypeptide binding]; other site 290402009327 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 290402009328 DNA binding site [nucleotide binding] 290402009329 Predicted membrane protein [Function unknown]; Region: COG3462 290402009330 Short C-terminal domain; Region: SHOCT; pfam09851 290402009331 Cache domain; Region: Cache_1; pfam02743 290402009332 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402009333 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 290402009334 dimerization interface [polypeptide binding]; other site 290402009335 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402009336 dimer interface [polypeptide binding]; other site 290402009337 putative CheW interface [polypeptide binding]; other site 290402009338 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 290402009339 Cation efflux family; Region: Cation_efflux; pfam01545 290402009340 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 290402009341 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 290402009342 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290402009343 catalytic residues [active] 290402009344 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 290402009345 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290402009346 catalytic residues [active] 290402009347 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 290402009348 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 290402009349 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 290402009350 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 290402009351 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 290402009352 DNA binding residues [nucleotide binding] 290402009353 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 290402009354 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 290402009355 S-adenosylmethionine binding site [chemical binding]; other site 290402009356 CAAX protease self-immunity; Region: Abi; pfam02517 290402009357 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 290402009358 UbiA prenyltransferase family; Region: UbiA; pfam01040 290402009359 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 290402009360 4Fe-4S binding domain; Region: Fer4_5; pfam12801 290402009361 YtkA-like; Region: YtkA; pfam13115 290402009362 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 290402009363 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 290402009364 substrate binding pocket [chemical binding]; other site 290402009365 chain length determination region; other site 290402009366 substrate-Mg2+ binding site; other site 290402009367 catalytic residues [active] 290402009368 aspartate-rich region 1; other site 290402009369 active site lid residues [active] 290402009370 aspartate-rich region 2; other site 290402009371 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 290402009372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 290402009373 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 290402009374 NlpC/P60 family; Region: NLPC_P60; pfam00877 290402009375 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 290402009376 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402009377 Walker A/P-loop; other site 290402009378 ATP binding site [chemical binding]; other site 290402009379 Q-loop/lid; other site 290402009380 ABC transporter signature motif; other site 290402009381 Walker B; other site 290402009382 D-loop; other site 290402009383 H-loop/switch region; other site 290402009384 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 290402009385 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 290402009386 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402009387 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 290402009388 dimerization interface [polypeptide binding]; other site 290402009389 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402009390 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402009391 dimer interface [polypeptide binding]; other site 290402009392 putative CheW interface [polypeptide binding]; other site 290402009393 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 290402009394 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 290402009395 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 290402009396 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290402009397 catalytic residues [active] 290402009398 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 290402009399 Uncharacterized conserved protein [Function unknown]; Region: COG0398 290402009400 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 290402009401 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 290402009402 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 290402009403 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 290402009404 metal-binding site [ion binding] 290402009405 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402009406 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 290402009407 dimer interface [polypeptide binding]; other site 290402009408 phosphorylation site [posttranslational modification] 290402009409 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402009410 ATP binding site [chemical binding]; other site 290402009411 Mg2+ binding site [ion binding]; other site 290402009412 G-X-G motif; other site 290402009413 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402009414 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402009415 active site 290402009416 phosphorylation site [posttranslational modification] 290402009417 intermolecular recognition site; other site 290402009418 dimerization interface [polypeptide binding]; other site 290402009419 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 290402009420 DNA binding site [nucleotide binding] 290402009421 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 290402009422 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290402009423 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 290402009424 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290402009425 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 290402009426 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 290402009427 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290402009428 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 290402009429 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 290402009430 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 290402009431 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 290402009432 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 290402009433 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 290402009434 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 290402009435 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 290402009436 NADH dehydrogenase subunit D; Provisional; Region: PRK12322 290402009437 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 290402009438 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 290402009439 NADH dehydrogenase subunit B; Validated; Region: PRK06411 290402009440 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 290402009441 Short C-terminal domain; Region: SHOCT; pfam09851 290402009442 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 290402009443 UbiA prenyltransferase family; Region: UbiA; pfam01040 290402009444 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 290402009445 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290402009446 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402009447 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290402009448 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 290402009449 active site residue [active] 290402009450 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290402009451 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 290402009452 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 290402009453 Predicted permeases [General function prediction only]; Region: COG0730 290402009454 4Fe-4S binding domain; Region: Fer4_5; pfam12801 290402009455 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 290402009456 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 290402009457 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290402009458 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290402009459 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 290402009460 dimerization interface [polypeptide binding]; other site 290402009461 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 290402009462 ATP binding site [chemical binding]; other site 290402009463 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 290402009464 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 290402009465 HupF/HypC family; Region: HupF_HypC; pfam01455 290402009466 Acylphosphatase; Region: Acylphosphatase; pfam00708 290402009467 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 290402009468 HypF finger; Region: zf-HYPF; pfam07503 290402009469 HypF finger; Region: zf-HYPF; pfam07503 290402009470 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 290402009471 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 290402009472 nickel binding site [ion binding]; other site 290402009473 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 290402009474 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 290402009475 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 290402009476 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 290402009477 hybrid cluster protein; Provisional; Region: PRK05290 290402009478 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 290402009479 ACS interaction site; other site 290402009480 CODH interaction site; other site 290402009481 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 290402009482 ACS interaction site; other site 290402009483 CODH interaction site; other site 290402009484 metal cluster binding site [ion binding]; other site 290402009485 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402009486 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 290402009487 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290402009488 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 290402009489 ligand binding site [chemical binding]; other site 290402009490 flexible hinge region; other site 290402009491 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 290402009492 putative switch regulator; other site 290402009493 non-specific DNA interactions [nucleotide binding]; other site 290402009494 DNA binding site [nucleotide binding] 290402009495 sequence specific DNA binding site [nucleotide binding]; other site 290402009496 putative cAMP binding site [chemical binding]; other site 290402009497 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 290402009498 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402009499 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402009500 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 290402009501 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402009502 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402009503 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 290402009504 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402009505 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 290402009506 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 290402009507 ACS interaction site; other site 290402009508 CODH interaction site; other site 290402009509 cubane metal cluster (B-cluster) [ion binding]; other site 290402009510 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 290402009511 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 290402009512 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402009513 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402009514 dimer interface [polypeptide binding]; other site 290402009515 putative CheW interface [polypeptide binding]; other site 290402009516 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 290402009517 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 290402009518 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290402009519 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290402009520 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 290402009521 putative FMN binding site [chemical binding]; other site 290402009522 NADPH bind site [chemical binding]; other site 290402009523 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 290402009524 metal-binding site [ion binding] 290402009525 Predicted transcriptional regulators [Transcription]; Region: COG1695 290402009526 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 290402009527 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402009528 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402009529 putative substrate translocation pore; other site 290402009530 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 290402009531 B12 binding site [chemical binding]; other site 290402009532 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 290402009533 Radical SAM superfamily; Region: Radical_SAM; pfam04055 290402009534 FeS/SAM binding site; other site 290402009535 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 290402009536 salt bridge; other site 290402009537 non-specific DNA binding site [nucleotide binding]; other site 290402009538 sequence-specific DNA binding site [nucleotide binding]; other site 290402009539 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 290402009540 LytTr DNA-binding domain; Region: LytTR; smart00850 290402009541 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 290402009542 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 290402009543 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402009544 FtsH Extracellular; Region: FtsH_ext; pfam06480 290402009545 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 290402009546 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 290402009547 Walker A motif; other site 290402009548 ATP binding site [chemical binding]; other site 290402009549 Walker B motif; other site 290402009550 arginine finger; other site 290402009551 Peptidase family M41; Region: Peptidase_M41; pfam01434 290402009552 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 290402009553 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 290402009554 catalytic residue [active] 290402009555 Uncharacterized conserved protein [Function unknown]; Region: COG1262 290402009556 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 290402009557 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 290402009558 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402009559 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 290402009560 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402009561 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402009562 dimer interface [polypeptide binding]; other site 290402009563 putative CheW interface [polypeptide binding]; other site 290402009564 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402009565 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402009566 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290402009567 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402009568 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 290402009569 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 290402009570 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402009571 Walker A/P-loop; other site 290402009572 ATP binding site [chemical binding]; other site 290402009573 Q-loop/lid; other site 290402009574 ABC transporter signature motif; other site 290402009575 Walker B; other site 290402009576 D-loop; other site 290402009577 H-loop/switch region; other site 290402009578 ABC transporter; Region: ABC_tran_2; pfam12848 290402009579 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402009580 Mor transcription activator family; Region: Mor; cl02360 290402009581 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402009582 Zn2+ binding site [ion binding]; other site 290402009583 Mg2+ binding site [ion binding]; other site 290402009584 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 290402009585 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402009586 Zn2+ binding site [ion binding]; other site 290402009587 Mg2+ binding site [ion binding]; other site 290402009588 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402009589 HAMP domain; Region: HAMP; pfam00672 290402009590 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 290402009591 dimer interface [polypeptide binding]; other site 290402009592 phosphorylation site [posttranslational modification] 290402009593 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402009594 ATP binding site [chemical binding]; other site 290402009595 Mg2+ binding site [ion binding]; other site 290402009596 G-X-G motif; other site 290402009597 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402009598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402009599 active site 290402009600 phosphorylation site [posttranslational modification] 290402009601 intermolecular recognition site; other site 290402009602 dimerization interface [polypeptide binding]; other site 290402009603 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 290402009604 DNA binding site [nucleotide binding] 290402009605 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 290402009606 4Fe-4S binding domain; Region: Fer4_5; pfam12801 290402009607 4Fe-4S binding domain; Region: Fer4_5; pfam12801 290402009608 FMN-binding domain; Region: FMN_bind; cl01081 290402009609 FMN-binding domain; Region: FMN_bind; cl01081 290402009610 FMN-binding domain; Region: FMN_bind; cl01081 290402009611 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 290402009612 ApbE family; Region: ApbE; pfam02424 290402009613 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 290402009614 Nitroreductase-like family 1. 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_1; cd02137 290402009615 dimer interface [polypeptide binding]; other site 290402009616 FMN binding site [chemical binding]; other site 290402009617 Pirin-related protein [General function prediction only]; Region: COG1741 290402009618 Pirin; Region: Pirin; pfam02678 290402009619 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402009620 MarR family; Region: MarR_2; pfam12802 290402009621 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 290402009622 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290402009623 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 290402009624 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 290402009625 iron-sulfur cluster [ion binding]; other site 290402009626 [2Fe-2S] cluster binding site [ion binding]; other site 290402009627 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 290402009628 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 290402009629 Predicted membrane protein [Function unknown]; Region: COG2119 290402009630 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 290402009631 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 290402009632 Uncharacterized family 3; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_3; cd10160 290402009633 putative homodimer interface [polypeptide binding]; other site 290402009634 putative homotetramer interface [polypeptide binding]; other site 290402009635 putative metal binding site [ion binding]; other site 290402009636 putative homodimer-homodimer interface [polypeptide binding]; other site 290402009637 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 290402009638 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290402009639 Soluble P-type ATPase [General function prediction only]; Region: COG4087 290402009640 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 290402009641 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402009642 Coenzyme A binding pocket [chemical binding]; other site 290402009643 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 290402009644 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 290402009645 Rubrerythrin [Energy production and conversion]; Region: COG1592 290402009646 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 290402009647 diiron binding motif [ion binding]; other site 290402009648 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 290402009649 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402009650 ligand binding site [chemical binding]; other site 290402009651 calcium binding site [ion binding]; other site 290402009652 Predicted acetyltransferase [General function prediction only]; Region: COG3393 290402009653 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 290402009654 Coenzyme A binding pocket [chemical binding]; other site 290402009655 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 290402009656 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402009657 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402009658 ligand binding site [chemical binding]; other site 290402009659 calcium binding site [ion binding]; other site 290402009660 PAS domain S-box; Region: sensory_box; TIGR00229 290402009661 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 290402009662 putative active site [active] 290402009663 heme pocket [chemical binding]; other site 290402009664 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 290402009665 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 290402009666 putative active site [active] 290402009667 heme pocket [chemical binding]; other site 290402009668 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 290402009669 dimer interface [polypeptide binding]; other site 290402009670 phosphorylation site [posttranslational modification] 290402009671 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402009672 ATP binding site [chemical binding]; other site 290402009673 Mg2+ binding site [ion binding]; other site 290402009674 G-X-G motif; other site 290402009675 Response regulator receiver domain; Region: Response_reg; pfam00072 290402009676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402009677 active site 290402009678 phosphorylation site [posttranslational modification] 290402009679 intermolecular recognition site; other site 290402009680 dimerization interface [polypeptide binding]; other site 290402009681 PAS fold; Region: PAS_3; pfam08447 290402009682 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 290402009683 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402009684 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402009685 metal binding site [ion binding]; metal-binding site 290402009686 active site 290402009687 I-site; other site 290402009688 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 290402009689 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402009690 metal binding site [ion binding]; metal-binding site 290402009691 active site 290402009692 I-site; other site 290402009693 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402009694 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402009695 PAS domain S-box; Region: sensory_box; TIGR00229 290402009696 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 290402009697 putative active site [active] 290402009698 heme pocket [chemical binding]; other site 290402009699 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 290402009700 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 290402009701 putative active site [active] 290402009702 heme pocket [chemical binding]; other site 290402009703 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 290402009704 dimer interface [polypeptide binding]; other site 290402009705 phosphorylation site [posttranslational modification] 290402009706 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402009707 ATP binding site [chemical binding]; other site 290402009708 Mg2+ binding site [ion binding]; other site 290402009709 G-X-G motif; other site 290402009710 Response regulator receiver domain; Region: Response_reg; pfam00072 290402009711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402009712 active site 290402009713 phosphorylation site [posttranslational modification] 290402009714 intermolecular recognition site; other site 290402009715 dimerization interface [polypeptide binding]; other site 290402009716 PAS domain; Region: PAS_9; pfam13426 290402009717 PAS fold; Region: PAS_4; pfam08448 290402009718 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 290402009719 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 290402009720 dimer interface [polypeptide binding]; other site 290402009721 phosphorylation site [posttranslational modification] 290402009722 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402009723 ATP binding site [chemical binding]; other site 290402009724 Mg2+ binding site [ion binding]; other site 290402009725 G-X-G motif; other site 290402009726 Response regulator receiver domain; Region: Response_reg; pfam00072 290402009727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402009728 active site 290402009729 phosphorylation site [posttranslational modification] 290402009730 intermolecular recognition site; other site 290402009731 dimerization interface [polypeptide binding]; other site 290402009732 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 290402009733 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 290402009734 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 290402009735 active site 290402009736 metal binding site [ion binding]; metal-binding site 290402009737 nudix motif; other site 290402009738 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402009739 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 290402009740 dimerization interface [polypeptide binding]; other site 290402009741 putative DNA binding site [nucleotide binding]; other site 290402009742 putative Zn2+ binding site [ion binding]; other site 290402009743 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 290402009744 putative FMN binding site [chemical binding]; other site 290402009745 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 290402009746 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290402009747 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 290402009748 Isochorismatase family; Region: Isochorismatase; pfam00857 290402009749 catalytic triad [active] 290402009750 conserved cis-peptide bond; other site 290402009751 TfoX C-terminal domain; Region: TfoX_C; pfam04994 290402009752 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 290402009753 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 290402009754 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 290402009755 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 290402009756 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 290402009757 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402009758 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290402009759 Probable zinc-binding domain; Region: zf-trcl; pfam13451 290402009760 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 290402009761 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 290402009762 dimer interface [polypeptide binding]; other site 290402009763 motif 1; other site 290402009764 active site 290402009765 motif 2; other site 290402009766 motif 3; other site 290402009767 Anticodon binding domain; Region: HGTP_anticodon; pfam03129 290402009768 anticodon binding site; other site 290402009769 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290402009770 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 290402009771 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402009772 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402009773 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402009774 Walker A/P-loop; other site 290402009775 ATP binding site [chemical binding]; other site 290402009776 Q-loop/lid; other site 290402009777 ABC transporter signature motif; other site 290402009778 Walker B; other site 290402009779 D-loop; other site 290402009780 H-loop/switch region; other site 290402009781 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402009782 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402009783 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402009784 Walker A/P-loop; other site 290402009785 ATP binding site [chemical binding]; other site 290402009786 Q-loop/lid; other site 290402009787 ABC transporter signature motif; other site 290402009788 Walker B; other site 290402009789 D-loop; other site 290402009790 H-loop/switch region; other site 290402009791 Helix-turn-helix domain; Region: HTH_18; pfam12833 290402009792 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402009793 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 290402009794 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 290402009795 Walker A/P-loop; other site 290402009796 ATP binding site [chemical binding]; other site 290402009797 Q-loop/lid; other site 290402009798 ABC transporter signature motif; other site 290402009799 Walker B; other site 290402009800 D-loop; other site 290402009801 H-loop/switch region; other site 290402009802 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402009803 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 290402009804 Walker A/P-loop; other site 290402009805 ATP binding site [chemical binding]; other site 290402009806 Q-loop/lid; other site 290402009807 ABC transporter signature motif; other site 290402009808 Walker B; other site 290402009809 D-loop; other site 290402009810 H-loop/switch region; other site 290402009811 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 290402009812 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 290402009813 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402009814 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 290402009815 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 290402009816 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 290402009817 substrate binding pocket [chemical binding]; other site 290402009818 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 290402009819 B12 binding site [chemical binding]; other site 290402009820 cobalt ligand [ion binding]; other site 290402009821 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 290402009822 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 290402009823 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 290402009824 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402009825 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 290402009826 DNA binding residues [nucleotide binding] 290402009827 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 290402009828 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 290402009829 Penicillinase repressor; Region: Pencillinase_R; pfam03965 290402009830 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 290402009831 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 290402009832 FMN binding site [chemical binding]; other site 290402009833 active site 290402009834 catalytic residues [active] 290402009835 substrate binding site [chemical binding]; other site 290402009836 DnaJ domain; Region: DnaJ; pfam00226 290402009837 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402009838 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402009839 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 290402009840 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 290402009841 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402009842 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402009843 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 290402009844 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 290402009845 YIEGIA protein; Region: YIEGIA; pfam14045 290402009846 type IV pilin biogenesis protein; Provisional; Region: PRK10573 290402009847 Phospholipid methyltransferase; Region: PEMT; pfam04191 290402009848 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 290402009849 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 290402009850 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402009851 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 290402009852 dimerization interface [polypeptide binding]; other site 290402009853 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402009854 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402009855 dimer interface [polypeptide binding]; other site 290402009856 putative CheW interface [polypeptide binding]; other site 290402009857 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 290402009858 intersubunit interface [polypeptide binding]; other site 290402009859 active site 290402009860 catalytic residue [active] 290402009861 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402009862 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 290402009863 TM-ABC transporter signature motif; other site 290402009864 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402009865 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 290402009866 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 290402009867 TM-ABC transporter signature motif; other site 290402009868 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 290402009869 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290402009870 Walker A/P-loop; other site 290402009871 ATP binding site [chemical binding]; other site 290402009872 Q-loop/lid; other site 290402009873 ABC transporter signature motif; other site 290402009874 Walker B; other site 290402009875 D-loop; other site 290402009876 H-loop/switch region; other site 290402009877 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290402009878 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 290402009879 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 290402009880 ligand binding site [chemical binding]; other site 290402009881 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 290402009882 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 290402009883 Predicted membrane protein [Function unknown]; Region: COG2364 290402009884 phosphopentomutase; Provisional; Region: PRK05362 290402009885 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 290402009886 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 290402009887 active site 290402009888 catalytic motif [active] 290402009889 Zn binding site [ion binding]; other site 290402009890 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 290402009891 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 290402009892 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290402009893 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402009894 DNA-binding site [nucleotide binding]; DNA binding site 290402009895 Predicted membrane protein [Function unknown]; Region: COG2855 290402009896 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402009897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402009898 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 290402009899 putative dimerization interface [polypeptide binding]; other site 290402009900 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 290402009901 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 290402009902 active site 290402009903 catalytic tetrad [active] 290402009904 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 290402009905 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402009906 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402009907 ligand binding site [chemical binding]; other site 290402009908 calcium binding site [ion binding]; other site 290402009909 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402009910 Coenzyme A binding pocket [chemical binding]; other site 290402009911 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402009912 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402009913 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 290402009914 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 290402009915 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 290402009916 conserved cys residue [active] 290402009917 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402009918 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402009919 ligand binding site [chemical binding]; other site 290402009920 calcium binding site [ion binding]; other site 290402009921 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402009922 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402009923 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 290402009924 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290402009925 PilZ domain; Region: PilZ; pfam07238 290402009926 flagellar assembly protein H; Validated; Region: fliH; PRK05687 290402009927 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 290402009928 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 290402009929 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 290402009930 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 290402009931 Part of AAA domain; Region: AAA_19; pfam13245 290402009932 Family description; Region: UvrD_C_2; pfam13538 290402009933 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 290402009934 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 290402009935 ATP binding site [chemical binding]; other site 290402009936 putative Mg++ binding site [ion binding]; other site 290402009937 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 290402009938 nucleotide binding region [chemical binding]; other site 290402009939 ATP-binding site [chemical binding]; other site 290402009940 Dehydratase family; Region: ILVD_EDD; cl00340 290402009941 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 290402009942 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 290402009943 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 290402009944 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 290402009945 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 290402009946 ATP binding site [chemical binding]; other site 290402009947 putative Mg++ binding site [ion binding]; other site 290402009948 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402009949 ABC transporter signature motif; other site 290402009950 Walker B; other site 290402009951 D-loop; other site 290402009952 H-loop/switch region; other site 290402009953 Protein of unknown function DUF262; Region: DUF262; pfam03235 290402009954 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 290402009955 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 290402009956 HsdM N-terminal domain; Region: HsdM_N; pfam12161 290402009957 Methyltransferase domain; Region: Methyltransf_26; pfam13659 290402009958 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 290402009959 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402009960 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290402009961 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 290402009962 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402009963 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402009964 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 290402009965 YvrJ protein family; Region: YvrJ; pfam12841 290402009966 Smr domain; Region: Smr; cl02619 290402009967 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 290402009968 catalytic core [active] 290402009969 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 290402009970 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 290402009971 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 290402009972 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 290402009973 dimer interface [polypeptide binding]; other site 290402009974 phosphorylation site [posttranslational modification] 290402009975 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402009976 ATP binding site [chemical binding]; other site 290402009977 Mg2+ binding site [ion binding]; other site 290402009978 G-X-G motif; other site 290402009979 Accessory gene regulator B; Region: AgrB; pfam04647 290402009980 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 290402009981 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 290402009982 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402009983 Protein of unknown function (DUF422); Region: DUF422; cl00991 290402009984 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 290402009985 aspartate racemase; Region: asp_race; TIGR00035 290402009986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402009987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402009988 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 290402009989 dimerization interface [polypeptide binding]; other site 290402009990 LysE type translocator; Region: LysE; cl00565 290402009991 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 290402009992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290402009993 NAD(P) binding site [chemical binding]; other site 290402009994 active site 290402009995 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402009996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402009997 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 290402009998 dimerization interface [polypeptide binding]; other site 290402009999 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 290402010000 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290402010001 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 290402010002 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 290402010003 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 290402010004 DNA binding residues [nucleotide binding] 290402010005 putative dimer interface [polypeptide binding]; other site 290402010006 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 290402010007 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 290402010008 putative active site [active] 290402010009 putative NTP binding site [chemical binding]; other site 290402010010 putative nucleic acid binding site [nucleotide binding]; other site 290402010011 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 290402010012 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290402010013 active site 290402010014 HIGH motif; other site 290402010015 nucleotide binding site [chemical binding]; other site 290402010016 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290402010017 active site 290402010018 KMSKS motif; other site 290402010019 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 290402010020 anticodon binding site; other site 290402010021 tRNA binding surface [nucleotide binding]; other site 290402010022 Protein of unknown function (DUF3916); Region: DUF3916; pfam13079 290402010023 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 290402010024 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 290402010025 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 290402010026 glycosyltransferase, MGT family; Region: MGT; TIGR01426 290402010027 active site 290402010028 TDP-binding site; other site 290402010029 acceptor substrate-binding pocket; other site 290402010030 homodimer interface [polypeptide binding]; other site 290402010031 BRO family, N-terminal domain; Region: Bro-N; smart01040 290402010032 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 290402010033 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 290402010034 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 290402010035 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290402010036 Walker A motif; other site 290402010037 ATP binding site [chemical binding]; other site 290402010038 Walker B motif; other site 290402010039 arginine finger; other site 290402010040 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 290402010041 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 290402010042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 290402010043 DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]; Region: PolC; COG2176 290402010044 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 290402010045 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 290402010046 generic binding surface II; other site 290402010047 generic binding surface I; other site 290402010048 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 290402010049 active site 290402010050 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 290402010051 active site 290402010052 catalytic site [active] 290402010053 substrate binding site [chemical binding]; other site 290402010054 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 290402010055 Domain of unknown function (DUF4318); Region: DUF4318; pfam14201 290402010056 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 290402010057 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 290402010058 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 290402010059 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 290402010060 active site 290402010061 dimer interface [polypeptide binding]; other site 290402010062 motif 1; other site 290402010063 motif 2; other site 290402010064 motif 3; other site 290402010065 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 290402010066 anticodon binding site; other site 290402010067 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402010068 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 290402010069 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 290402010070 MarR family; Region: MarR_2; pfam12802 290402010071 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402010072 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402010073 Coenzyme A binding pocket [chemical binding]; other site 290402010074 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cd05709 290402010075 active site 290402010076 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 290402010077 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 290402010078 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402010079 Zn2+ binding site [ion binding]; other site 290402010080 Mg2+ binding site [ion binding]; other site 290402010081 Nitroreductase family; Region: Nitroreductase; pfam00881 290402010082 FMN binding site [chemical binding]; other site 290402010083 dimer interface [polypeptide binding]; other site 290402010084 Chloramphenicol acetyltransferase; Region: CAT; pfam00302 290402010085 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 290402010086 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 290402010087 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 290402010088 aspartate ammonia-lyase; Provisional; Region: PRK13353 290402010089 Aspartase; Region: Aspartase; cd01357 290402010090 active sites [active] 290402010091 tetramer interface [polypeptide binding]; other site 290402010092 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402010093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402010094 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 290402010095 dimerization interface [polypeptide binding]; other site 290402010096 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 290402010097 Cupin domain; Region: Cupin_2; pfam07883 290402010098 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 290402010099 homotrimer interaction site [polypeptide binding]; other site 290402010100 putative active site [active] 290402010101 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 290402010102 DJ-1 family protein; Region: not_thiJ; TIGR01383 290402010103 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 290402010104 conserved cys residue [active] 290402010105 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 290402010106 S-adenosylmethionine binding site [chemical binding]; other site 290402010107 Methyltransferase domain; Region: Methyltransf_31; pfam13847 290402010108 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290402010109 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 290402010110 active site 290402010111 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 290402010112 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290402010113 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290402010114 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290402010115 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402010116 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 290402010117 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290402010118 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 290402010119 TAP-like protein; Region: Abhydrolase_4; pfam08386 290402010120 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 290402010121 Cupin domain; Region: Cupin_2; cl17218 290402010122 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 290402010123 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 290402010124 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 290402010125 G1 box; other site 290402010126 GTP/Mg2+ binding site [chemical binding]; other site 290402010127 Switch I region; other site 290402010128 G2 box; other site 290402010129 Switch II region; other site 290402010130 G3 box; other site 290402010131 G4 box; other site 290402010132 G5 box; other site 290402010133 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 290402010134 Aspartase; Region: Aspartase; cd01357 290402010135 active sites [active] 290402010136 tetramer interface [polypeptide binding]; other site 290402010137 Stage II sporulation protein; Region: SpoIID; pfam08486 290402010138 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 290402010139 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290402010140 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 290402010141 S-adenosylmethionine binding site [chemical binding]; other site 290402010142 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 290402010143 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 290402010144 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 290402010145 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 290402010146 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 290402010147 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 290402010148 Uncharacterized conserved protein [Function unknown]; Region: COG1284 290402010149 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 290402010150 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290402010151 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 290402010152 ligand binding site [chemical binding]; other site 290402010153 flexible hinge region; other site 290402010154 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 290402010155 putative switch regulator; other site 290402010156 non-specific DNA interactions [nucleotide binding]; other site 290402010157 DNA binding site [nucleotide binding] 290402010158 sequence specific DNA binding site [nucleotide binding]; other site 290402010159 putative cAMP binding site [chemical binding]; other site 290402010160 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 290402010161 Uncharacterized conserved protein [Function unknown]; Region: COG1633 290402010162 dinuclear metal binding motif [ion binding]; other site 290402010163 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290402010164 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290402010165 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290402010166 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 290402010167 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 290402010168 motif II; other site 290402010169 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 290402010170 Predicted permeases [General function prediction only]; Region: COG0701 290402010171 Domain of unknown function (DUF1980); Region: DUF1980; pfam09323 290402010172 TIGR03943 family protein; Region: TIGR03943 290402010173 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402010174 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 290402010175 Uncharacterized conserved protein [Function unknown]; Region: COG3603 290402010176 Family description; Region: ACT_7; pfam13840 290402010177 Lyc muramidase is an autolytic lysozyme (autolysin) from Clostridium acetobutylicum encoded by the lyc gene. Lyc has a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan...; Region: GH25_Lyc-like; cd06525 290402010178 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 290402010179 active site 290402010180 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402010181 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402010182 Bacteriophage holin; Region: Phage_holin_1; pfam04531 290402010183 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 290402010184 beta-galactosidase; Region: BGL; TIGR03356 290402010185 Predicted peptidase [General function prediction only]; Region: COG4099 290402010186 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290402010187 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 290402010188 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402010189 active site turn [active] 290402010190 phosphorylation site [posttranslational modification] 290402010191 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402010192 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 290402010193 HPr interaction site; other site 290402010194 glycerol kinase (GK) interaction site [polypeptide binding]; other site 290402010195 active site 290402010196 phosphorylation site [posttranslational modification] 290402010197 transcriptional antiterminator BglG; Provisional; Region: PRK09772 290402010198 CAT RNA binding domain; Region: CAT_RBD; smart01061 290402010199 PRD domain; Region: PRD; pfam00874 290402010200 PRD domain; Region: PRD; pfam00874 290402010201 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 290402010202 amino acid transporter; Region: 2A0306; TIGR00909 290402010203 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 290402010204 intersubunit interface [polypeptide binding]; other site 290402010205 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 290402010206 active site 290402010207 Zn2+ binding site [ion binding]; other site 290402010208 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 290402010209 Coenzyme A transferase; Region: CoA_trans; smart00882 290402010210 Coenzyme A transferase; Region: CoA_trans; cl17247 290402010211 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 290402010212 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 290402010213 Domain of Unknown Function with PDB structure (DUF3850); Region: DUF3850; pfam12961 290402010214 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 290402010215 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 290402010216 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 290402010217 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 290402010218 putative NADH binding site [chemical binding]; other site 290402010219 putative active site [active] 290402010220 nudix motif; other site 290402010221 putative metal binding site [ion binding]; other site 290402010222 YmaF family; Region: YmaF; pfam12788 290402010223 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402010224 Zn2+ binding site [ion binding]; other site 290402010225 Mg2+ binding site [ion binding]; other site 290402010226 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 290402010227 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 290402010228 NodB motif; other site 290402010229 active site 290402010230 catalytic site [active] 290402010231 Zn binding site [ion binding]; other site 290402010232 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402010233 Coenzyme A binding pocket [chemical binding]; other site 290402010234 HD domain; Region: HD_4; pfam13328 290402010235 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 290402010236 catalytic residues [active] 290402010237 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 290402010238 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 290402010239 Predicted membrane protein (DUF2085); Region: DUF2085; pfam09858 290402010240 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402010241 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402010242 ligand binding site [chemical binding]; other site 290402010243 calcium binding site [ion binding]; other site 290402010244 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402010245 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402010246 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 290402010247 Walker A/P-loop; other site 290402010248 ATP binding site [chemical binding]; other site 290402010249 Q-loop/lid; other site 290402010250 ABC transporter signature motif; other site 290402010251 Walker B; other site 290402010252 D-loop; other site 290402010253 H-loop/switch region; other site 290402010254 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402010255 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402010256 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402010257 Walker A/P-loop; other site 290402010258 ATP binding site [chemical binding]; other site 290402010259 Q-loop/lid; other site 290402010260 ABC transporter signature motif; other site 290402010261 Walker B; other site 290402010262 D-loop; other site 290402010263 H-loop/switch region; other site 290402010264 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290402010265 MarR family; Region: MarR_2; pfam12802 290402010266 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 290402010267 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 290402010268 FOG: CBS domain [General function prediction only]; Region: COG0517 290402010269 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402010270 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402010271 metal binding site [ion binding]; metal-binding site 290402010272 active site 290402010273 I-site; other site 290402010274 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 290402010275 S-adenosylmethionine binding site [chemical binding]; other site 290402010276 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402010277 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402010278 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402010279 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 290402010280 Walker A/P-loop; other site 290402010281 ATP binding site [chemical binding]; other site 290402010282 Q-loop/lid; other site 290402010283 ABC transporter signature motif; other site 290402010284 Walker B; other site 290402010285 D-loop; other site 290402010286 H-loop/switch region; other site 290402010287 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290402010288 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290402010289 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402010290 Walker A/P-loop; other site 290402010291 ATP binding site [chemical binding]; other site 290402010292 Q-loop/lid; other site 290402010293 ABC transporter signature motif; other site 290402010294 Walker B; other site 290402010295 D-loop; other site 290402010296 H-loop/switch region; other site 290402010297 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 290402010298 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290402010299 DNA binding residues [nucleotide binding] 290402010300 putative dimer interface [polypeptide binding]; other site 290402010301 oxidoreductase; Provisional; Region: PRK06196 290402010302 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 290402010303 putative NAD(P) binding site [chemical binding]; other site 290402010304 active site 290402010305 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 290402010306 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 290402010307 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402010308 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402010309 metal binding site [ion binding]; metal-binding site 290402010310 active site 290402010311 I-site; other site 290402010312 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402010313 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402010314 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 290402010315 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 290402010316 active site 290402010317 FMN binding site [chemical binding]; other site 290402010318 substrate binding site [chemical binding]; other site 290402010319 putative catalytic residue [active] 290402010320 drug efflux system protein MdtG; Provisional; Region: PRK09874 290402010321 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402010322 putative substrate translocation pore; other site 290402010323 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402010324 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402010325 WHG domain; Region: WHG; pfam13305 290402010326 Cache domain; Region: Cache_1; pfam02743 290402010327 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402010328 HAMP domain; Region: HAMP; pfam00672 290402010329 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402010330 dimer interface [polypeptide binding]; other site 290402010331 putative CheW interface [polypeptide binding]; other site 290402010332 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402010333 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 290402010334 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 290402010335 dimer interface [polypeptide binding]; other site 290402010336 phosphorylation site [posttranslational modification] 290402010337 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402010338 ATP binding site [chemical binding]; other site 290402010339 Mg2+ binding site [ion binding]; other site 290402010340 G-X-G motif; other site 290402010341 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402010342 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402010343 active site 290402010344 phosphorylation site [posttranslational modification] 290402010345 intermolecular recognition site; other site 290402010346 dimerization interface [polypeptide binding]; other site 290402010347 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 290402010348 DNA binding site [nucleotide binding] 290402010349 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 290402010350 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 290402010351 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 290402010352 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 290402010353 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 290402010354 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 290402010355 Walker A/P-loop; other site 290402010356 ATP binding site [chemical binding]; other site 290402010357 Q-loop/lid; other site 290402010358 ABC transporter signature motif; other site 290402010359 Walker B; other site 290402010360 D-loop; other site 290402010361 H-loop/switch region; other site 290402010362 Protein of unknown function (DUF975); Region: DUF975; cl10504 290402010363 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 290402010364 Domain of unknown function DUF21; Region: DUF21; pfam01595 290402010365 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 290402010366 Transporter associated domain; Region: CorC_HlyC; pfam03471 290402010367 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 290402010368 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290402010369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402010370 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 290402010371 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 290402010372 catalytic residues [active] 290402010373 Uncharacterized conserved protein [Function unknown]; Region: COG3379 290402010374 Uncharacterized conserved protein [Function unknown]; Region: COG3379 290402010375 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290402010376 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290402010377 Walker A/P-loop; other site 290402010378 ATP binding site [chemical binding]; other site 290402010379 Q-loop/lid; other site 290402010380 ABC transporter signature motif; other site 290402010381 Walker B; other site 290402010382 D-loop; other site 290402010383 H-loop/switch region; other site 290402010384 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 290402010385 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 290402010386 membrane-bound complex binding site; other site 290402010387 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290402010388 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 290402010389 dimer interface [polypeptide binding]; other site 290402010390 conserved gate region; other site 290402010391 putative PBP binding loops; other site 290402010392 ABC-ATPase subunit interface; other site 290402010393 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 290402010394 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402010395 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402010396 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402010397 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402010398 putative substrate translocation pore; other site 290402010399 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402010400 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 290402010401 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402010402 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402010403 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402010404 ligand binding site [chemical binding]; other site 290402010405 calcium binding site [ion binding]; other site 290402010406 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290402010407 active pocket/dimerization site; other site 290402010408 active site 290402010409 phosphorylation site [posttranslational modification] 290402010410 Predicted transcriptional regulator [Transcription]; Region: COG2378 290402010411 HTH domain; Region: HTH_11; pfam08279 290402010412 WYL domain; Region: WYL; pfam13280 290402010413 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 290402010414 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 290402010415 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402010416 ligand binding site [chemical binding]; other site 290402010417 calcium binding site [ion binding]; other site 290402010418 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 290402010419 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 290402010420 non-heme iron binding site [ion binding]; other site 290402010421 dimer interface [polypeptide binding]; other site 290402010422 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 290402010423 non-heme iron binding site [ion binding]; other site 290402010424 (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 290402010425 dimer interaction site [polypeptide binding]; other site 290402010426 substrate-binding tunnel; other site 290402010427 active site 290402010428 catalytic site [active] 290402010429 substrate binding site [chemical binding]; other site 290402010430 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 290402010431 fructuronate transporter; Provisional; Region: PRK10034; cl15264 290402010432 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 290402010433 Coenzyme A transferase; Region: CoA_trans; smart00882 290402010434 Coenzyme A transferase; Region: CoA_trans; cl17247 290402010435 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 290402010436 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 290402010437 putative active site [active] 290402010438 heme pocket [chemical binding]; other site 290402010439 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 290402010440 putative active site [active] 290402010441 heme pocket [chemical binding]; other site 290402010442 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 290402010443 Walker A motif; other site 290402010444 ATP binding site [chemical binding]; other site 290402010445 Walker B motif; other site 290402010446 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290402010447 Glyco_18 domain; Region: Glyco_18; smart00636 290402010448 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 290402010449 active site 290402010450 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402010451 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402010452 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402010453 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402010454 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402010455 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 290402010456 dimerization interface [polypeptide binding]; other site 290402010457 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402010458 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402010459 dimer interface [polypeptide binding]; other site 290402010460 putative CheW interface [polypeptide binding]; other site 290402010461 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402010462 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 290402010463 dimerization interface [polypeptide binding]; other site 290402010464 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 290402010465 dimer interface [polypeptide binding]; other site 290402010466 phosphorylation site [posttranslational modification] 290402010467 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402010468 ATP binding site [chemical binding]; other site 290402010469 Mg2+ binding site [ion binding]; other site 290402010470 G-X-G motif; other site 290402010471 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402010472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402010473 active site 290402010474 phosphorylation site [posttranslational modification] 290402010475 intermolecular recognition site; other site 290402010476 dimerization interface [polypeptide binding]; other site 290402010477 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 290402010478 DNA binding site [nucleotide binding] 290402010479 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 290402010480 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 290402010481 ligand binding site [chemical binding]; other site 290402010482 flexible hinge region; other site 290402010483 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 290402010484 putative switch regulator; other site 290402010485 DNA binding site [nucleotide binding] 290402010486 sequence specific DNA binding site [nucleotide binding]; other site 290402010487 putative cAMP binding site [chemical binding]; other site 290402010488 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 290402010489 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 290402010490 motif II; other site 290402010491 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402010492 MgtE intracellular N domain; Region: MgtE_N; smart00924 290402010493 FOG: CBS domain [General function prediction only]; Region: COG0517 290402010494 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 290402010495 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 290402010496 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 290402010497 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 290402010498 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402010499 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402010500 DNA binding site [nucleotide binding] 290402010501 domain linker motif; other site 290402010502 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 290402010503 putative dimerization interface [polypeptide binding]; other site 290402010504 putative ligand binding site [chemical binding]; other site 290402010505 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 290402010506 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 290402010507 Domain of unknown function (DUF718); Region: DUF718; cl01281 290402010508 hypothetical protein; Provisional; Region: PRK09273 290402010509 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 290402010510 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 290402010511 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 290402010512 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 290402010513 NADP binding site [chemical binding]; other site 290402010514 homodimer interface [polypeptide binding]; other site 290402010515 active site 290402010516 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290402010517 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402010518 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402010519 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 290402010520 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290402010521 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290402010522 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 290402010523 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 290402010524 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 290402010525 Protein of unknown function (DUF1646); Region: DUF1646; pfam07854 290402010526 PAS fold; Region: PAS_4; pfam08448 290402010527 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 290402010528 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 290402010529 putative active site [active] 290402010530 heme pocket [chemical binding]; other site 290402010531 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 290402010532 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 290402010533 dimer interface [polypeptide binding]; other site 290402010534 phosphorylation site [posttranslational modification] 290402010535 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402010536 ATP binding site [chemical binding]; other site 290402010537 Mg2+ binding site [ion binding]; other site 290402010538 G-X-G motif; other site 290402010539 SdpI/YhfL protein family; Region: SdpI; pfam13630 290402010540 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 290402010541 putative deacylase active site [active] 290402010542 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402010543 Haemolysin XhlA; Region: XhlA; pfam10779 290402010544 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 290402010545 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 290402010546 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 290402010547 Domain of unknown function DUF11; Region: DUF11; cl17728 290402010548 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; cl09900 290402010549 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 290402010550 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 290402010551 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 290402010552 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 290402010553 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 290402010554 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 290402010555 Phage-related protein [Function unknown]; Region: COG5412 290402010556 Phage XkdN-like protein; Region: XkdN; pfam08890 290402010557 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 290402010558 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 290402010559 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 290402010560 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 290402010561 Cache domain; Region: Cache_1; pfam02743 290402010562 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 290402010563 dimerization interface [polypeptide binding]; other site 290402010564 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 290402010565 dimer interface [polypeptide binding]; other site 290402010566 phosphorylation site [posttranslational modification] 290402010567 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402010568 ATP binding site [chemical binding]; other site 290402010569 Mg2+ binding site [ion binding]; other site 290402010570 G-X-G motif; other site 290402010571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402010572 phosphorylation site [posttranslational modification] 290402010573 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402010574 intermolecular recognition site; other site 290402010575 active site 290402010576 dimerization interface [polypeptide binding]; other site 290402010577 Response regulator receiver domain; Region: Response_reg; pfam00072 290402010578 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402010579 active site 290402010580 phosphorylation site [posttranslational modification] 290402010581 intermolecular recognition site; other site 290402010582 dimerization interface [polypeptide binding]; other site 290402010583 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402010584 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 290402010585 dimer interface [polypeptide binding]; other site 290402010586 phosphorylation site [posttranslational modification] 290402010587 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402010588 ATP binding site [chemical binding]; other site 290402010589 Mg2+ binding site [ion binding]; other site 290402010590 G-X-G motif; other site 290402010591 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 290402010592 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402010593 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 290402010594 NHL repeat; Region: NHL; pfam01436 290402010595 NHL repeat; Region: NHL; pfam01436 290402010596 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 290402010597 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402010598 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402010599 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402010600 EamA-like transporter family; Region: EamA; pfam00892 290402010601 EamA-like transporter family; Region: EamA; pfam00892 290402010602 Cupin domain; Region: Cupin_2; pfam07883 290402010603 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402010604 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402010605 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290402010606 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402010607 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402010608 LysE type translocator; Region: LysE; cl00565 290402010609 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402010610 Coenzyme A binding pocket [chemical binding]; other site 290402010611 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 290402010612 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 290402010613 putative FMN binding site [chemical binding]; other site 290402010614 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 290402010615 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 290402010616 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 290402010617 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402010618 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402010619 ligand binding site [chemical binding]; other site 290402010620 calcium binding site [ion binding]; other site 290402010621 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402010622 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402010623 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 290402010624 dimerization interface [polypeptide binding]; other site 290402010625 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 290402010626 catalytic core [active] 290402010627 Hemerythrin; Region: Hemerythrin; cd12107 290402010628 Fe binding site [ion binding]; other site 290402010629 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290402010630 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290402010631 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 290402010632 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402010633 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402010634 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 290402010635 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 290402010636 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290402010637 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290402010638 Walker A/P-loop; other site 290402010639 ATP binding site [chemical binding]; other site 290402010640 Q-loop/lid; other site 290402010641 ABC transporter signature motif; other site 290402010642 Walker B; other site 290402010643 D-loop; other site 290402010644 H-loop/switch region; other site 290402010645 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 290402010646 active site 290402010647 catalytic motif [active] 290402010648 Zn binding site [ion binding]; other site 290402010649 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290402010650 EamA-like transporter family; Region: EamA; pfam00892 290402010651 EamA-like transporter family; Region: EamA; pfam00892 290402010652 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290402010653 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290402010654 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402010655 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_3; cd07241 290402010656 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290402010657 putative metal binding site [ion binding]; other site 290402010658 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 290402010659 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 290402010660 active site 290402010661 substrate binding site [chemical binding]; other site 290402010662 trimer interface [polypeptide binding]; other site 290402010663 CoA binding site [chemical binding]; other site 290402010664 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402010665 putative substrate translocation pore; other site 290402010666 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402010667 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290402010668 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290402010669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402010670 Transposase domain (DUF772); Region: DUF772; pfam05598 290402010671 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402010672 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402010673 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 290402010674 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 290402010675 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 290402010676 FeS/SAM binding site; other site 290402010677 Radical SAM superfamily; Region: Radical_SAM; pfam04055 290402010678 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 290402010679 B3/4 domain; Region: B3_4; pfam03483 290402010680 Repair protein; Region: Repair_PSII; pfam04536 290402010681 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_24; cd04683 290402010682 nudix motif; other site 290402010683 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 290402010684 Homeodomain-like domain; Region: HTH_23; pfam13384 290402010685 Homeodomain-like domain; Region: HTH_32; pfam13565 290402010686 Winged helix-turn helix; Region: HTH_33; pfam13592 290402010687 DDE superfamily endonuclease; Region: DDE_3; pfam13358 290402010688 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 290402010689 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402010690 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402010691 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 290402010692 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 290402010693 active site 290402010694 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 290402010695 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 290402010696 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290402010697 DNA binding residues [nucleotide binding] 290402010698 dimer interface [polypeptide binding]; other site 290402010699 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 290402010700 non-specific DNA binding site [nucleotide binding]; other site 290402010701 salt bridge; other site 290402010702 sequence-specific DNA binding site [nucleotide binding]; other site 290402010703 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 290402010704 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 290402010705 trimer interface [polypeptide binding]; other site 290402010706 active site 290402010707 substrate binding site [chemical binding]; other site 290402010708 CoA binding site [chemical binding]; other site 290402010709 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 290402010710 4Fe-4S binding domain; Region: Fer4; pfam00037 290402010711 Predicted ATPase [General function prediction only]; Region: COG3910 290402010712 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402010713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402010714 Walker A/P-loop; other site 290402010715 Walker A/P-loop; other site 290402010716 ATP binding site [chemical binding]; other site 290402010717 ATP binding site [chemical binding]; other site 290402010718 Q-loop/lid; other site 290402010719 ABC transporter signature motif; other site 290402010720 Walker B; other site 290402010721 D-loop; other site 290402010722 H-loop/switch region; other site 290402010723 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 290402010724 CAAX protease self-immunity; Region: Abi; pfam02517 290402010725 Methyltransferase domain; Region: Methyltransf_31; pfam13847 290402010726 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 290402010727 S-adenosylmethionine binding site [chemical binding]; other site 290402010728 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402010729 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402010730 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 290402010731 dimerization interface [polypeptide binding]; other site 290402010732 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 290402010733 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290402010734 DNA binding residues [nucleotide binding] 290402010735 dimer interface [polypeptide binding]; other site 290402010736 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 290402010737 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402010738 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 290402010739 dimer interface [polypeptide binding]; other site 290402010740 phosphorylation site [posttranslational modification] 290402010741 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402010742 ATP binding site [chemical binding]; other site 290402010743 Mg2+ binding site [ion binding]; other site 290402010744 G-X-G motif; other site 290402010745 FIST N domain; Region: FIST; pfam08495 290402010746 FIST C domain; Region: FIST_C; pfam10442 290402010747 Response regulator receiver domain; Region: Response_reg; pfam00072 290402010748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402010749 active site 290402010750 phosphorylation site [posttranslational modification] 290402010751 intermolecular recognition site; other site 290402010752 dimerization interface [polypeptide binding]; other site 290402010753 HDOD domain; Region: HDOD; pfam08668 290402010754 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 290402010755 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 290402010756 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 290402010757 FAD binding pocket [chemical binding]; other site 290402010758 FAD binding motif [chemical binding]; other site 290402010759 phosphate binding motif [ion binding]; other site 290402010760 beta-alpha-beta structure motif; other site 290402010761 NAD binding pocket [chemical binding]; other site 290402010762 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 290402010763 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 290402010764 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 290402010765 NodB motif; other site 290402010766 active site 290402010767 catalytic site [active] 290402010768 Zn binding site [ion binding]; other site 290402010769 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 290402010770 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 290402010771 non-specific DNA binding site [nucleotide binding]; other site 290402010772 salt bridge; other site 290402010773 sequence-specific DNA binding site [nucleotide binding]; other site 290402010774 MarR family; Region: MarR; pfam01047 290402010775 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290402010776 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 290402010777 S-adenosylmethionine binding site [chemical binding]; other site 290402010778 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 290402010779 active site 290402010780 catalytic residues [active] 290402010781 metal binding site [ion binding]; metal-binding site 290402010782 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 290402010783 non-specific DNA binding site [nucleotide binding]; other site 290402010784 salt bridge; other site 290402010785 sequence-specific DNA binding site [nucleotide binding]; other site 290402010786 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402010787 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402010788 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402010789 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402010790 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402010791 putative CheW interface [polypeptide binding]; other site 290402010792 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 290402010793 Protein of unknown function (DUF692); Region: DUF692; cl01263 290402010794 H+ Antiporter protein; Region: 2A0121; TIGR00900 290402010795 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg1; cd04777 290402010796 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290402010797 DNA binding residues [nucleotide binding] 290402010798 putative dimer interface [polypeptide binding]; other site 290402010799 Trm112p-like protein; Region: Trm112p; pfam03966 290402010800 Methyltransferase domain; Region: Methyltransf_31; pfam13847 290402010801 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 290402010802 hypothetical protein; Provisional; Region: PRK10281 290402010803 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402010804 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290402010805 FAD binding domain; Region: FAD_binding_4; pfam01565 290402010806 Berberine and berberine like; Region: BBE; pfam08031 290402010807 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290402010808 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290402010809 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 290402010810 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290402010811 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 290402010812 dimer interface [polypeptide binding]; other site 290402010813 conserved gate region; other site 290402010814 putative PBP binding loops; other site 290402010815 ABC-ATPase subunit interface; other site 290402010816 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 290402010817 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 290402010818 dimer interface [polypeptide binding]; other site 290402010819 conserved gate region; other site 290402010820 putative PBP binding loops; other site 290402010821 ABC-ATPase subunit interface; other site 290402010822 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290402010823 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290402010824 Histidine kinase; Region: His_kinase; pfam06580 290402010825 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402010826 ATP binding site [chemical binding]; other site 290402010827 Mg2+ binding site [ion binding]; other site 290402010828 G-X-G motif; other site 290402010829 Response regulator receiver domain; Region: Response_reg; pfam00072 290402010830 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402010831 active site 290402010832 phosphorylation site [posttranslational modification] 290402010833 intermolecular recognition site; other site 290402010834 dimerization interface [polypeptide binding]; other site 290402010835 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402010836 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402010837 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 290402010838 LytTr DNA-binding domain; Region: LytTR; smart00850 290402010839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402010840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402010841 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 290402010842 putative dimerization interface [polypeptide binding]; other site 290402010843 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 290402010844 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 290402010845 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 290402010846 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 290402010847 ligand binding site [chemical binding]; other site 290402010848 NAD binding site [chemical binding]; other site 290402010849 dimerization interface [polypeptide binding]; other site 290402010850 catalytic site [active] 290402010851 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 290402010852 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 290402010853 FeS/SAM binding site; other site 290402010854 Serine hydrolase; Region: Ser_hydrolase; pfam06821 290402010855 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290402010856 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 290402010857 active site 290402010858 catalytic residues [active] 290402010859 metal binding site [ion binding]; metal-binding site 290402010860 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 290402010861 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290402010862 active site 290402010863 catalytic tetrad [active] 290402010864 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 290402010865 dimerization interface [polypeptide binding]; other site 290402010866 putative DNA binding site [nucleotide binding]; other site 290402010867 putative Zn2+ binding site [ion binding]; other site 290402010868 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 290402010869 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 290402010870 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 290402010871 trimer interface [polypeptide binding]; other site 290402010872 active site 290402010873 substrate binding site [chemical binding]; other site 290402010874 CoA binding site [chemical binding]; other site 290402010875 phosphoenolpyruvate synthase; Validated; Region: PRK06241 290402010876 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 290402010877 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290402010878 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290402010879 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290402010880 nucleotide binding site [chemical binding]; other site 290402010881 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 290402010882 active site 290402010883 catalytic residues [active] 290402010884 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 290402010885 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290402010886 nucleotide binding site [chemical binding]; other site 290402010887 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 290402010888 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402010889 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402010890 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 290402010891 putative active site [active] 290402010892 Citrate transporter; Region: CitMHS; pfam03600 290402010893 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 290402010894 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402010895 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402010896 dimer interface [polypeptide binding]; other site 290402010897 putative CheW interface [polypeptide binding]; other site 290402010898 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 290402010899 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402010900 ligand binding site [chemical binding]; other site 290402010901 4Fe-4S binding domain; Region: Fer4; cl02805 290402010902 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 290402010903 4Fe-4S binding domain; Region: Fer4; pfam00037 290402010904 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 290402010905 putative FMN binding site [chemical binding]; other site 290402010906 short chain dehydrogenase; Provisional; Region: PRK06523 290402010907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290402010908 NAD(P) binding site [chemical binding]; other site 290402010909 active site 290402010910 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 290402010911 Predicted transcriptional regulator [Transcription]; Region: COG1959 290402010912 Transcriptional regulator; Region: Rrf2; pfam02082 290402010913 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 290402010914 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 290402010915 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 290402010916 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 290402010917 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 290402010918 active site 290402010919 FMN binding site [chemical binding]; other site 290402010920 substrate binding site [chemical binding]; other site 290402010921 homotetramer interface [polypeptide binding]; other site 290402010922 catalytic residue [active] 290402010923 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402010924 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402010925 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 290402010926 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 290402010927 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290402010928 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 290402010929 SdpI/YhfL protein family; Region: SdpI; pfam13630 290402010930 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 290402010931 dimerization interface [polypeptide binding]; other site 290402010932 putative DNA binding site [nucleotide binding]; other site 290402010933 putative Zn2+ binding site [ion binding]; other site 290402010934 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 290402010935 RNA polymerase factor sigma-70; Validated; Region: PRK06811 290402010936 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402010937 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 290402010938 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 290402010939 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 290402010940 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 290402010941 Walker A/P-loop; other site 290402010942 ATP binding site [chemical binding]; other site 290402010943 Q-loop/lid; other site 290402010944 ABC transporter signature motif; other site 290402010945 Walker B; other site 290402010946 D-loop; other site 290402010947 H-loop/switch region; other site 290402010948 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 290402010949 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 290402010950 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 290402010951 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 290402010952 homodimer interface [polypeptide binding]; other site 290402010953 substrate-cofactor binding pocket; other site 290402010954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402010955 catalytic residue [active] 290402010956 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 290402010957 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 290402010958 Phosphotransferase enzyme family; Region: APH; pfam01636 290402010959 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 290402010960 active site 290402010961 substrate binding site [chemical binding]; other site 290402010962 ATP binding site [chemical binding]; other site 290402010963 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 290402010964 Protein of unknown function DUF89; Region: DUF89; cl15397 290402010965 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 290402010966 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 290402010967 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 290402010968 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 290402010969 non-specific DNA binding site [nucleotide binding]; other site 290402010970 salt bridge; other site 290402010971 sequence-specific DNA binding site [nucleotide binding]; other site 290402010972 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 290402010973 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 290402010974 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 290402010975 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 290402010976 hypothetical protein; Reviewed; Region: PRK09588 290402010977 TROVE domain; Region: TROVE; pfam05731 290402010978 WYL domain; Region: WYL; pfam13280 290402010979 WYL domain; Region: WYL; pfam13280 290402010980 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 290402010981 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402010982 Coenzyme A binding pocket [chemical binding]; other site 290402010983 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 290402010984 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 290402010985 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290402010986 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290402010987 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290402010988 flavodoxin; Provisional; Region: PRK06242 290402010989 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402010990 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 290402010991 dimer interface [polypeptide binding]; other site 290402010992 phosphorylation site [posttranslational modification] 290402010993 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402010994 ATP binding site [chemical binding]; other site 290402010995 Mg2+ binding site [ion binding]; other site 290402010996 G-X-G motif; other site 290402010997 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402010998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402010999 active site 290402011000 phosphorylation site [posttranslational modification] 290402011001 intermolecular recognition site; other site 290402011002 dimerization interface [polypeptide binding]; other site 290402011003 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 290402011004 DNA binding site [nucleotide binding] 290402011005 nascent polypeptide-associated complex protein; Reviewed; Region: nac; PRK06369 290402011006 nascent polypeptide-associated complex protein; Reviewed; Region: nac; PRK06369 290402011007 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 290402011008 RNA polymerase factor sigma-70; Validated; Region: PRK06811 290402011009 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402011010 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 290402011011 4Fe-4S binding domain; Region: Fer4_5; pfam12801 290402011012 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 290402011013 FMN-binding domain; Region: FMN_bind; cl01081 290402011014 FMN-binding domain; Region: FMN_bind; cl01081 290402011015 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 290402011016 ApbE family; Region: ApbE; pfam02424 290402011017 Predicted transcriptional regulators [Transcription]; Region: COG1695 290402011018 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 290402011019 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 290402011020 RNA polymerase factor sigma-70; Validated; Region: PRK06811 290402011021 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402011022 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 290402011023 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402011024 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402011025 Melibiase; Region: Melibiase; pfam02065 290402011026 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 290402011027 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 290402011028 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402011029 Helix-turn-helix domain; Region: HTH_18; pfam12833 290402011030 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402011031 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402011032 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402011033 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402011034 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290402011035 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290402011036 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290402011037 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402011038 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 290402011039 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402011040 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402011041 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 290402011042 putative dimerization interface [polypeptide binding]; other site 290402011043 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 290402011044 putative FMN binding site [chemical binding]; other site 290402011045 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 290402011046 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 290402011047 dimer interface [polypeptide binding]; other site 290402011048 putative anticodon binding site; other site 290402011049 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 290402011050 motif 1; other site 290402011051 dimer interface [polypeptide binding]; other site 290402011052 active site 290402011053 motif 2; other site 290402011054 motif 3; other site 290402011055 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 290402011056 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 290402011057 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402011058 Predicted transcriptional regulators [Transcription]; Region: COG1695 290402011059 Transcriptional regulator PadR-like family; Region: PadR; cl17335 290402011060 Domain of unknown function (DUF303); Region: DUF303; pfam03629 290402011061 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 290402011062 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 290402011063 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290402011064 DNA binding residues [nucleotide binding] 290402011065 putative dimer interface [polypeptide binding]; other site 290402011066 glutamate racemase; Provisional; Region: PRK00865 290402011067 4Fe-4S binding domain; Region: Fer4; pfam00037 290402011068 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 290402011069 putative FMN binding site [chemical binding]; other site 290402011070 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402011071 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402011072 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290402011073 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290402011074 Predicted membrane protein [Function unknown]; Region: COG2323 290402011075 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 290402011076 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402011077 Coenzyme A binding pocket [chemical binding]; other site 290402011078 Predicted transcriptional regulator [Transcription]; Region: COG2378 290402011079 HTH domain; Region: HTH_11; pfam08279 290402011080 WYL domain; Region: WYL; pfam13280 290402011081 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 290402011082 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 290402011083 Tn544A and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal catalytic domain. This CD includes various bacterial transposases similar to TnpA from transposon Tn554; Region: INT_Tn554A_C; cd01194 290402011084 Int/Topo IB signature motif; other site 290402011085 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 290402011086 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 290402011087 active site 290402011088 DNA binding site [nucleotide binding] 290402011089 Int/Topo IB signature motif; other site 290402011090 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 290402011091 dimer interface [polypeptide binding]; other site 290402011092 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290402011093 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 290402011094 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 290402011095 methionine aminopeptidase; Provisional; Region: PRK12318 290402011096 SEC-C motif; Region: SEC-C; pfam02810 290402011097 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 290402011098 active site 290402011099 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402011100 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 290402011101 non-specific DNA binding site [nucleotide binding]; other site 290402011102 salt bridge; other site 290402011103 sequence-specific DNA binding site [nucleotide binding]; other site 290402011104 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 290402011105 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290402011106 NADP binding site [chemical binding]; other site 290402011107 putative substrate binding site [chemical binding]; other site 290402011108 active site 290402011109 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402011110 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402011111 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402011112 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402011113 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402011114 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402011115 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 290402011116 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402011117 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 290402011118 DNA binding residues [nucleotide binding] 290402011119 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 290402011120 Cache domain; Region: Cache_1; pfam02743 290402011121 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402011122 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402011123 dimer interface [polypeptide binding]; other site 290402011124 putative CheW interface [polypeptide binding]; other site 290402011125 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290402011126 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 290402011127 Helix-turn-helix domain; Region: HTH_17; pfam12728 290402011128 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 290402011129 putative acyltransferase; Provisional; Region: PRK05790 290402011130 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 290402011131 dimer interface [polypeptide binding]; other site 290402011132 active site 290402011133 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402011134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402011135 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 290402011136 dimerization interface [polypeptide binding]; other site 290402011137 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 290402011138 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290402011139 NAD(P) binding site [chemical binding]; other site 290402011140 active site 290402011141 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 290402011142 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290402011143 DNA binding residues [nucleotide binding] 290402011144 putative dimer interface [polypeptide binding]; other site 290402011145 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 290402011146 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 290402011147 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290402011148 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 290402011149 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402011150 MarR family; Region: MarR; pfam01047 290402011151 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 290402011152 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290402011153 catalytic residue [active] 290402011154 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290402011155 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290402011156 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290402011157 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 290402011158 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 290402011159 TPP-binding site [chemical binding]; other site 290402011160 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 290402011161 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 290402011162 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 290402011163 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 290402011164 FMN binding site [chemical binding]; other site 290402011165 dimer interface [polypeptide binding]; other site 290402011166 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402011167 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402011168 Flavodoxin domain; Region: Flavodoxin_5; cl17428 290402011169 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 290402011170 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402011171 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402011172 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 290402011173 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402011174 MarR family; Region: MarR; pfam01047 290402011175 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402011176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402011177 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402011178 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402011179 putative substrate translocation pore; other site 290402011180 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 290402011181 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290402011182 substrate binding pocket [chemical binding]; other site 290402011183 membrane-bound complex binding site; other site 290402011184 hinge residues; other site 290402011185 LytTr DNA-binding domain; Region: LytTR; smart00850 290402011186 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402011187 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402011188 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402011189 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290402011190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290402011191 NAD(P) binding site [chemical binding]; other site 290402011192 active site 290402011193 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402011194 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 290402011195 salt bridge; other site 290402011196 non-specific DNA binding site [nucleotide binding]; other site 290402011197 sequence-specific DNA binding site [nucleotide binding]; other site 290402011198 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 290402011199 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402011200 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 290402011201 dimerization interface [polypeptide binding]; other site 290402011202 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 290402011203 dimer interface [polypeptide binding]; other site 290402011204 phosphorylation site [posttranslational modification] 290402011205 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402011206 ATP binding site [chemical binding]; other site 290402011207 Mg2+ binding site [ion binding]; other site 290402011208 G-X-G motif; other site 290402011209 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402011210 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402011211 active site 290402011212 phosphorylation site [posttranslational modification] 290402011213 intermolecular recognition site; other site 290402011214 dimerization interface [polypeptide binding]; other site 290402011215 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 290402011216 DNA binding site [nucleotide binding] 290402011217 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 290402011218 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 290402011219 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402011220 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 290402011221 dimer interface [polypeptide binding]; other site 290402011222 phosphorylation site [posttranslational modification] 290402011223 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 290402011224 ATP binding site [chemical binding]; other site 290402011225 Mg2+ binding site [ion binding]; other site 290402011226 G-X-G motif; other site 290402011227 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 290402011228 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 290402011229 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290402011230 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 290402011231 Walker A/P-loop; other site 290402011232 ATP binding site [chemical binding]; other site 290402011233 Q-loop/lid; other site 290402011234 ABC transporter signature motif; other site 290402011235 Walker B; other site 290402011236 D-loop; other site 290402011237 H-loop/switch region; other site 290402011238 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402011239 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402011240 active site 290402011241 phosphorylation site [posttranslational modification] 290402011242 intermolecular recognition site; other site 290402011243 dimerization interface [polypeptide binding]; other site 290402011244 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 290402011245 DNA binding site [nucleotide binding] 290402011246 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 290402011247 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 290402011248 putative active site [active] 290402011249 putative NTP binding site [chemical binding]; other site 290402011250 putative nucleic acid binding site [nucleotide binding]; other site 290402011251 HAMP domain; Region: HAMP; pfam00672 290402011252 dimerization interface [polypeptide binding]; other site 290402011253 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402011254 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402011255 dimer interface [polypeptide binding]; other site 290402011256 putative CheW interface [polypeptide binding]; other site 290402011257 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 290402011258 active site 290402011259 GxGYxY sequence motif in domain of unknown function; Region: GxGYxYP; pfam14323 290402011260 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 290402011261 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 290402011262 active site 290402011263 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 290402011264 RNA polymerase factor sigma-70; Validated; Region: PRK06811 290402011265 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402011266 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 290402011267 DNA binding residues [nucleotide binding] 290402011268 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 290402011269 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 290402011270 putative transposase OrfB; Reviewed; Region: PHA02517 290402011271 HTH-like domain; Region: HTH_21; pfam13276 290402011272 Integrase core domain; Region: rve; pfam00665 290402011273 Integrase core domain; Region: rve_2; pfam13333 290402011274 Uncharacterized distant relative of cell wall-associated hydrolases [Function unknown]; Region: COG3863 290402011275 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402011276 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290402011277 Walker A/P-loop; other site 290402011278 ATP binding site [chemical binding]; other site 290402011279 Q-loop/lid; other site 290402011280 ABC transporter signature motif; other site 290402011281 Walker B; other site 290402011282 D-loop; other site 290402011283 H-loop/switch region; other site 290402011284 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 290402011285 FtsX-like permease family; Region: FtsX; pfam02687 290402011286 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290402011287 FtsX-like permease family; Region: FtsX; pfam02687 290402011288 Predicted membrane protein [Function unknown]; Region: COG4907 290402011289 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290402011290 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402011291 Walker A/P-loop; other site 290402011292 ATP binding site [chemical binding]; other site 290402011293 Q-loop/lid; other site 290402011294 ABC transporter signature motif; other site 290402011295 Walker B; other site 290402011296 D-loop; other site 290402011297 H-loop/switch region; other site 290402011298 FtsX-like permease family; Region: FtsX; pfam02687 290402011299 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290402011300 FtsX-like permease family; Region: FtsX; pfam02687 290402011301 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 290402011302 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 290402011303 Walker A/P-loop; other site 290402011304 ATP binding site [chemical binding]; other site 290402011305 Q-loop/lid; other site 290402011306 ABC transporter signature motif; other site 290402011307 Walker B; other site 290402011308 D-loop; other site 290402011309 H-loop/switch region; other site 290402011310 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 290402011311 cobalt transport protein CbiM; Provisional; Region: PRK07331 290402011312 cobalt transport protein CbiM; Provisional; Region: PRK11909 290402011313 PDGLE domain; Region: PDGLE; pfam13190 290402011314 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 290402011315 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 290402011316 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402011317 MarR family; Region: MarR_2; pfam12802 290402011318 Beta-lactamase; Region: Beta-lactamase; pfam00144 290402011319 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 290402011320 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 290402011321 Protein of unknown function (DUF445); Region: DUF445; pfam04286 290402011322 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 290402011323 ApbE family; Region: ApbE; pfam02424 290402011324 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 290402011325 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 290402011326 putative binding site residues; other site 290402011327 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290402011328 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 290402011329 ABC-ATPase subunit interface; other site 290402011330 dimer interface [polypeptide binding]; other site 290402011331 putative PBP binding regions; other site 290402011332 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 290402011333 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 290402011334 Walker A/P-loop; other site 290402011335 ATP binding site [chemical binding]; other site 290402011336 Q-loop/lid; other site 290402011337 ABC transporter signature motif; other site 290402011338 Walker B; other site 290402011339 D-loop; other site 290402011340 H-loop/switch region; other site 290402011341 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290402011342 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 290402011343 DNA binding residues [nucleotide binding] 290402011344 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 290402011345 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 290402011346 GIY-YIG motif/motif A; other site 290402011347 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 290402011348 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402011349 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402011350 metal binding site [ion binding]; metal-binding site 290402011351 active site 290402011352 I-site; other site 290402011353 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 290402011354 transmembrane helices; other site 290402011355 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 290402011356 cobalt transport protein CbiN; Provisional; Region: PRK02898 290402011357 cobalt transport protein CbiM; Validated; Region: PRK08319 290402011358 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 290402011359 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 290402011360 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 290402011361 Walker A/P-loop; other site 290402011362 ATP binding site [chemical binding]; other site 290402011363 Q-loop/lid; other site 290402011364 ABC transporter signature motif; other site 290402011365 Walker B; other site 290402011366 D-loop; other site 290402011367 H-loop/switch region; other site 290402011368 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 290402011369 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 290402011370 Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The...; Region: Piwi-like; cl00628 290402011371 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 290402011372 Protein of unknown function; Region: DUF3658; pfam12395 290402011373 Methyltransferase domain; Region: Methyltransf_31; pfam13847 290402011374 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 290402011375 S-adenosylmethionine binding site [chemical binding]; other site 290402011376 YmaF family; Region: YmaF; pfam12788 290402011377 maltose O-acetyltransferase; Provisional; Region: PRK10092 290402011378 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 290402011379 active site 290402011380 substrate binding site [chemical binding]; other site 290402011381 trimer interface [polypeptide binding]; other site 290402011382 CoA binding site [chemical binding]; other site 290402011383 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 290402011384 LytTr DNA-binding domain; Region: LytTR; smart00850 290402011385 flagellar assembly protein H; Validated; Region: fliH; PRK05687 290402011386 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 290402011387 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290402011388 active site 290402011389 catalytic tetrad [active] 290402011390 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290402011391 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 290402011392 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290402011393 BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of...; Region: GH25_BacA-like; cd06418 290402011394 active site 290402011395 YcxB-like protein; Region: YcxB; pfam14317 290402011396 Lyc muramidase is an autolytic lysozyme (autolysin) from Clostridium acetobutylicum encoded by the lyc gene. Lyc has a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan...; Region: GH25_Lyc-like; cd06525 290402011397 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 290402011398 active site 290402011399 Putative zinc-finger; Region: zf-HC2; pfam13490 290402011400 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 290402011401 Walker A motif; other site 290402011402 ATP binding site [chemical binding]; other site 290402011403 Walker B motif; other site 290402011404 arginine finger; other site 290402011405 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 290402011406 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 290402011407 non-specific DNA binding site [nucleotide binding]; other site 290402011408 salt bridge; other site 290402011409 sequence-specific DNA binding site [nucleotide binding]; other site 290402011410 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402011411 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402011412 putative substrate translocation pore; other site 290402011413 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402011414 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402011415 YibE/F-like protein; Region: YibE_F; pfam07907 290402011416 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290402011417 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 290402011418 active site 290402011419 metal binding site [ion binding]; metal-binding site 290402011420 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402011421 MarR family; Region: MarR; pfam01047 290402011422 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 290402011423 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 290402011424 motif II; other site 290402011425 clostridium toxin-associated regulator BotR; Region: P21_Cbot; TIGR03209 290402011426 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 290402011427 DNA binding residues [nucleotide binding] 290402011428 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 290402011429 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 290402011430 non-specific DNA binding site [nucleotide binding]; other site 290402011431 salt bridge; other site 290402011432 sequence-specific DNA binding site [nucleotide binding]; other site 290402011433 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 290402011434 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 290402011435 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_23; cd09011 290402011436 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290402011437 Methyltransferase domain; Region: Methyltransf_11; pfam08241 290402011438 Hemerythrin; Region: Hemerythrin; cd12107 290402011439 Cupin domain; Region: Cupin_2; cl17218 290402011440 Cupin domain; Region: Cupin_2; pfam07883 290402011441 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 290402011442 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 290402011443 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 290402011444 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 290402011445 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290402011446 FAD binding domain; Region: FAD_binding_4; pfam01565 290402011447 Berberine and berberine like; Region: BBE; pfam08031 290402011448 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 290402011449 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 290402011450 Walker A/P-loop; other site 290402011451 ATP binding site [chemical binding]; other site 290402011452 Q-loop/lid; other site 290402011453 ABC transporter signature motif; other site 290402011454 Walker B; other site 290402011455 D-loop; other site 290402011456 H-loop/switch region; other site 290402011457 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 290402011458 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 290402011459 ABC-ATPase subunit interface; other site 290402011460 dimer interface [polypeptide binding]; other site 290402011461 putative PBP binding regions; other site 290402011462 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290402011463 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 290402011464 ABC-ATPase subunit interface; other site 290402011465 dimer interface [polypeptide binding]; other site 290402011466 putative PBP binding regions; other site 290402011467 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 290402011468 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 290402011469 siderophore binding site; other site 290402011470 MFS/sugar transport protein; Region: MFS_2; pfam13347 290402011471 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402011472 putative substrate translocation pore; other site 290402011473 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 290402011474 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 290402011475 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 290402011476 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 290402011477 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290402011478 Helix-turn-helix domain; Region: HTH_18; pfam12833 290402011479 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402011480 FMN-binding domain; Region: FMN_bind; cl01081 290402011481 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 290402011482 HPr interaction site; other site 290402011483 glycerol kinase (GK) interaction site [polypeptide binding]; other site 290402011484 active site 290402011485 phosphorylation site [posttranslational modification] 290402011486 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 290402011487 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 290402011488 active site 290402011489 motif I; other site 290402011490 motif II; other site 290402011491 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 290402011492 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 290402011493 PRD domain; Region: PRD; pfam00874 290402011494 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 290402011495 active site 290402011496 P-loop; other site 290402011497 phosphorylation site [posttranslational modification] 290402011498 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 290402011499 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 290402011500 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 290402011501 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 290402011502 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402011503 active site turn [active] 290402011504 phosphorylation site [posttranslational modification] 290402011505 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402011506 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 290402011507 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 290402011508 substrate binding [chemical binding]; other site 290402011509 active site 290402011510 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 290402011511 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402011512 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 290402011513 dimerization interface [polypeptide binding]; other site 290402011514 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 290402011515 dimer interface [polypeptide binding]; other site 290402011516 phosphorylation site [posttranslational modification] 290402011517 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402011518 ATP binding site [chemical binding]; other site 290402011519 Mg2+ binding site [ion binding]; other site 290402011520 G-X-G motif; other site 290402011521 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402011522 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402011523 active site 290402011524 phosphorylation site [posttranslational modification] 290402011525 intermolecular recognition site; other site 290402011526 dimerization interface [polypeptide binding]; other site 290402011527 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 290402011528 DNA binding site [nucleotide binding] 290402011529 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 290402011530 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 290402011531 Ligand binding site; other site 290402011532 Putative Catalytic site; other site 290402011533 DXD motif; other site 290402011534 FAD binding domain; Region: FAD_binding_2; pfam00890 290402011535 L-aspartate oxidase; Provisional; Region: PRK06175 290402011536 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; cl00315 290402011537 Predicted oxidoreductase [General function prediction only]; Region: COG3573 290402011538 SLBB domain; Region: SLBB; pfam10531 290402011539 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 290402011540 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 290402011541 catalytic loop [active] 290402011542 iron binding site [ion binding]; other site 290402011543 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 290402011544 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 290402011545 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290402011546 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 290402011547 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 290402011548 DNA binding residues [nucleotide binding] 290402011549 drug binding residues [chemical binding]; other site 290402011550 dimer interface [polypeptide binding]; other site 290402011551 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402011552 dimer interface [polypeptide binding]; other site 290402011553 putative CheW interface [polypeptide binding]; other site 290402011554 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 290402011555 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290402011556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402011557 active site 290402011558 phosphorylation site [posttranslational modification] 290402011559 intermolecular recognition site; other site 290402011560 dimerization interface [polypeptide binding]; other site 290402011561 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 290402011562 DNA binding residues [nucleotide binding] 290402011563 dimerization interface [polypeptide binding]; other site 290402011564 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 290402011565 Histidine kinase; Region: HisKA_3; pfam07730 290402011566 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 290402011567 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 290402011568 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402011569 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 290402011570 DNA binding residues [nucleotide binding] 290402011571 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402011572 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 290402011573 dimerization interface [polypeptide binding]; other site 290402011574 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402011575 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402011576 dimer interface [polypeptide binding]; other site 290402011577 putative CheW interface [polypeptide binding]; other site 290402011578 MOSC domain; Region: MOSC; pfam03473 290402011579 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 290402011580 trimer interface [polypeptide binding]; other site 290402011581 dimer interface [polypeptide binding]; other site 290402011582 putative active site [active] 290402011583 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 290402011584 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 290402011585 FeS/SAM binding site; other site 290402011586 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 290402011587 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 290402011588 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 290402011589 GTP binding site; other site 290402011590 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 290402011591 4Fe-4S binding domain; Region: Fer4; cl02805 290402011592 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 290402011593 4Fe-4S binding domain; Region: Fer4; pfam00037 290402011594 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 290402011595 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 290402011596 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 290402011597 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 290402011598 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 290402011599 Walker A motif; other site 290402011600 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 290402011601 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 290402011602 dimer interface [polypeptide binding]; other site 290402011603 putative functional site; other site 290402011604 putative MPT binding site; other site 290402011605 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 290402011606 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 290402011607 [4Fe-4S] binding site [ion binding]; other site 290402011608 molybdopterin cofactor binding site; other site 290402011609 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_CT_Formate-Dh_H; cd02790 290402011610 molybdopterin cofactor binding site; other site 290402011611 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 290402011612 MPT binding site; other site 290402011613 trimer interface [polypeptide binding]; other site 290402011614 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402011615 HAMP domain; Region: HAMP; pfam00672 290402011616 dimerization interface [polypeptide binding]; other site 290402011617 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402011618 dimer interface [polypeptide binding]; other site 290402011619 putative CheW interface [polypeptide binding]; other site 290402011620 Ycf46; Provisional; Region: ycf46; CHL00195 290402011621 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 290402011622 Walker A motif; other site 290402011623 ATP binding site [chemical binding]; other site 290402011624 Walker B motif; other site 290402011625 arginine finger; other site 290402011626 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 290402011627 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 290402011628 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 290402011629 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 290402011630 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290402011631 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290402011632 nucleotide binding site [chemical binding]; other site 290402011633 methionine cluster; other site 290402011634 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 290402011635 active site 290402011636 phosphorylation site [posttranslational modification] 290402011637 metal binding site [ion binding]; metal-binding site 290402011638 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 290402011639 active site 290402011640 P-loop; other site 290402011641 phosphorylation site [posttranslational modification] 290402011642 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 290402011643 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 290402011644 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 290402011645 beta-galactosidase; Region: BGL; TIGR03356 290402011646 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290402011647 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402011648 DNA-binding site [nucleotide binding]; DNA binding site 290402011649 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 290402011650 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 290402011651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402011652 active site 290402011653 phosphorylation site [posttranslational modification] 290402011654 intermolecular recognition site; other site 290402011655 dimerization interface [polypeptide binding]; other site 290402011656 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 290402011657 Walker A motif; other site 290402011658 ATP binding site [chemical binding]; other site 290402011659 Walker B motif; other site 290402011660 arginine finger; other site 290402011661 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290402011662 sensory histidine kinase AtoS; Provisional; Region: PRK11360 290402011663 HAMP domain; Region: HAMP; pfam00672 290402011664 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 290402011665 putative active site [active] 290402011666 heme pocket [chemical binding]; other site 290402011667 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 290402011668 dimer interface [polypeptide binding]; other site 290402011669 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402011670 ATP binding site [chemical binding]; other site 290402011671 Mg2+ binding site [ion binding]; other site 290402011672 G-X-G motif; other site 290402011673 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 290402011674 Coenzyme A transferase; Region: CoA_trans; smart00882 290402011675 Coenzyme A transferase; Region: CoA_trans; cl17247 290402011676 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 290402011677 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 290402011678 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 290402011679 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 290402011680 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402011681 dimer interface [polypeptide binding]; other site 290402011682 putative CheW interface [polypeptide binding]; other site 290402011683 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402011684 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 290402011685 Coenzyme A binding pocket [chemical binding]; other site 290402011686 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 290402011687 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290402011688 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290402011689 Walker A/P-loop; other site 290402011690 ATP binding site [chemical binding]; other site 290402011691 Q-loop/lid; other site 290402011692 ABC transporter signature motif; other site 290402011693 Walker B; other site 290402011694 D-loop; other site 290402011695 H-loop/switch region; other site 290402011696 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 290402011697 non-specific DNA binding site [nucleotide binding]; other site 290402011698 salt bridge; other site 290402011699 sequence-specific DNA binding site [nucleotide binding]; other site 290402011700 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 290402011701 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 290402011702 conserved cys residue [active] 290402011703 DTW domain; Region: DTW; cl01221 290402011704 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 290402011705 putative catalytic cysteine [active] 290402011706 Coenzyme A transferase; Region: CoA_trans; cl17247 290402011707 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 290402011708 acetoacetate decarboxylase; Provisional; Region: PRK02265 290402011709 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 290402011710 active site 290402011711 Protein of unknown function (DUF975); Region: DUF975; cl10504 290402011712 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402011713 Coenzyme A binding pocket [chemical binding]; other site 290402011714 membrane protein; Provisional; Region: PRK14413 290402011715 Domain of unknown function (DUF3784); Region: DUF3784; pfam12650 290402011716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 290402011717 maltose O-acetyltransferase; Provisional; Region: PRK10092 290402011718 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 290402011719 active site 290402011720 substrate binding site [chemical binding]; other site 290402011721 trimer interface [polypeptide binding]; other site 290402011722 CoA binding site [chemical binding]; other site 290402011723 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290402011724 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290402011725 Helix-turn-helix domain; Region: HTH_18; pfam12833 290402011726 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402011727 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 290402011728 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402011729 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402011730 ATP binding site [chemical binding]; other site 290402011731 Mg2+ binding site [ion binding]; other site 290402011732 G-X-G motif; other site 290402011733 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402011734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402011735 active site 290402011736 phosphorylation site [posttranslational modification] 290402011737 intermolecular recognition site; other site 290402011738 dimerization interface [polypeptide binding]; other site 290402011739 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 290402011740 DNA binding site [nucleotide binding] 290402011741 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 290402011742 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 290402011743 Zn binding site [ion binding]; other site 290402011744 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290402011745 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 290402011746 Walker A/P-loop; other site 290402011747 ATP binding site [chemical binding]; other site 290402011748 Q-loop/lid; other site 290402011749 ABC transporter signature motif; other site 290402011750 Walker B; other site 290402011751 D-loop; other site 290402011752 H-loop/switch region; other site 290402011753 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 290402011754 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 290402011755 Zn binding site [ion binding]; other site 290402011756 FtsX-like permease family; Region: FtsX; pfam02687 290402011757 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402011758 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290402011759 Walker A/P-loop; other site 290402011760 ATP binding site [chemical binding]; other site 290402011761 Q-loop/lid; other site 290402011762 ABC transporter signature motif; other site 290402011763 Walker B; other site 290402011764 D-loop; other site 290402011765 H-loop/switch region; other site 290402011766 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290402011767 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290402011768 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 290402011769 catalytic site [active] 290402011770 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 290402011771 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402011772 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 290402011773 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290402011774 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402011775 MarR family; Region: MarR_2; cl17246 290402011776 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402011777 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402011778 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 290402011779 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290402011780 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 290402011781 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290402011782 DNA binding residues [nucleotide binding] 290402011783 putative dimer interface [polypeptide binding]; other site 290402011784 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 290402011785 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 290402011786 putative NAD(P) binding site [chemical binding]; other site 290402011787 putative substrate binding site [chemical binding]; other site 290402011788 catalytic Zn binding site [ion binding]; other site 290402011789 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290402011790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290402011791 The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold; Region: PBP2_MleR; cd08437 290402011792 putative dimerization interface [polypeptide binding]; other site 290402011793 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 290402011794 Histidine kinase; Region: HisKA_3; pfam07730 290402011795 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290402011796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402011797 active site 290402011798 phosphorylation site [posttranslational modification] 290402011799 intermolecular recognition site; other site 290402011800 dimerization interface [polypeptide binding]; other site 290402011801 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 290402011802 DNA binding residues [nucleotide binding] 290402011803 dimerization interface [polypeptide binding]; other site 290402011804 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 290402011805 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 290402011806 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 290402011807 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 290402011808 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402011809 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402011810 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402011811 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402011812 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402011813 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402011814 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402011815 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 290402011816 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 290402011817 substrate binding [chemical binding]; other site 290402011818 active site 290402011819 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 290402011820 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 290402011821 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 290402011822 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 290402011823 active site 290402011824 phosphorylation site [posttranslational modification] 290402011825 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290402011826 active pocket/dimerization site; other site 290402011827 active site 290402011828 phosphorylation site [posttranslational modification] 290402011829 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 290402011830 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 290402011831 Walker A motif; other site 290402011832 ATP binding site [chemical binding]; other site 290402011833 Walker B motif; other site 290402011834 Transcriptional antiterminator [Transcription]; Region: COG3933 290402011835 PRD domain; Region: PRD; pfam00874 290402011836 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290402011837 active pocket/dimerization site; other site 290402011838 active site 290402011839 phosphorylation site [posttranslational modification] 290402011840 PRD domain; Region: PRD; pfam00874 290402011841 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290402011842 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 290402011843 putative substrate binding site [chemical binding]; other site 290402011844 putative ATP binding site [chemical binding]; other site 290402011845 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 290402011846 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 290402011847 substrate binding [chemical binding]; other site 290402011848 active site 290402011849 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 290402011850 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290402011851 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290402011852 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 290402011853 dimer interface [polypeptide binding]; other site 290402011854 conserved gate region; other site 290402011855 ABC-ATPase subunit interface; other site 290402011856 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 290402011857 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 290402011858 dimer interface [polypeptide binding]; other site 290402011859 conserved gate region; other site 290402011860 ABC-ATPase subunit interface; other site 290402011861 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402011862 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402011863 DNA binding site [nucleotide binding] 290402011864 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 290402011865 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 290402011866 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 290402011867 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 290402011868 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 290402011869 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 290402011870 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290402011871 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402011872 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402011873 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402011874 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 290402011875 active site 290402011876 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 290402011877 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402011878 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402011879 putative substrate translocation pore; other site 290402011880 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 290402011881 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 290402011882 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 290402011883 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 290402011884 NAD(P) binding site [chemical binding]; other site 290402011885 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 290402011886 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 290402011887 inhibitor-cofactor binding pocket; inhibition site 290402011888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402011889 catalytic residue [active] 290402011890 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 290402011891 hydrophobic ligand binding site; other site 290402011892 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402011893 MarR family; Region: MarR_2; pfam12802 290402011894 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 290402011895 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290402011896 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402011897 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402011898 Predicted transcriptional regulators [Transcription]; Region: COG1695 290402011899 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 290402011900 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290402011901 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402011902 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 290402011903 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 290402011904 RNA polymerase factor sigma-70; Validated; Region: PRK06811 290402011905 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402011906 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 290402011907 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402011908 Coenzyme A binding pocket [chemical binding]; other site 290402011909 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 290402011910 DNA binding residues [nucleotide binding] 290402011911 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290402011912 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 290402011913 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 290402011914 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290402011915 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402011916 short chain dehydrogenase; Provisional; Region: PRK12939 290402011917 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 290402011918 NADP binding site [chemical binding]; other site 290402011919 homodimer interface [polypeptide binding]; other site 290402011920 active site 290402011921 substrate binding site [chemical binding]; other site 290402011922 Nitroreductase-like family 3. 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_3; cd02139 290402011923 putative FMN binding site [chemical binding]; other site 290402011924 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 290402011925 maltose O-acetyltransferase; Provisional; Region: PRK10092 290402011926 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 290402011927 active site 290402011928 substrate binding site [chemical binding]; other site 290402011929 trimer interface [polypeptide binding]; other site 290402011930 CoA binding site [chemical binding]; other site 290402011931 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402011932 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402011933 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 290402011934 putative active site [active] 290402011935 VanZ like family; Region: VanZ; pfam04892 290402011936 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290402011937 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290402011938 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290402011939 Predicted transcriptional regulators [Transcription]; Region: COG1695 290402011940 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 290402011941 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402011942 MarR family; Region: MarR_2; pfam12802 290402011943 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402011944 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402011945 putative substrate translocation pore; other site 290402011946 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 290402011947 active site 290402011948 catalytic triad [active] 290402011949 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402011950 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402011951 ligand binding site [chemical binding]; other site 290402011952 calcium binding site [ion binding]; other site 290402011953 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 290402011954 catalytic core [active] 290402011955 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402011956 ATP binding site [chemical binding]; other site 290402011957 Mg2+ binding site [ion binding]; other site 290402011958 G-X-G motif; other site 290402011959 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 290402011960 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290402011961 active site 290402011962 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 290402011963 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 290402011964 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 290402011965 Catalytic site [active] 290402011966 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 290402011967 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290402011968 Coenzyme A binding pocket [chemical binding]; other site 290402011969 PAS fold; Region: PAS_4; pfam08448 290402011970 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 290402011971 PAS domain; Region: PAS_9; pfam13426 290402011972 putative active site [active] 290402011973 heme pocket [chemical binding]; other site 290402011974 PAS fold; Region: PAS_4; pfam08448 290402011975 PAS domain; Region: PAS_9; pfam13426 290402011976 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402011977 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 290402011978 dimer interface [polypeptide binding]; other site 290402011979 phosphorylation site [posttranslational modification] 290402011980 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402011981 ATP binding site [chemical binding]; other site 290402011982 Mg2+ binding site [ion binding]; other site 290402011983 G-X-G motif; other site 290402011984 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290402011985 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 290402011986 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402011987 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402011988 ligand binding site [chemical binding]; other site 290402011989 calcium binding site [ion binding]; other site 290402011990 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402011991 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402011992 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 290402011993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402011994 Coenzyme A binding pocket [chemical binding]; other site 290402011995 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402011996 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402011997 ligand binding site [chemical binding]; other site 290402011998 calcium binding site [ion binding]; other site 290402011999 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402012000 Coenzyme A binding pocket [chemical binding]; other site 290402012001 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 290402012002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402012003 Coenzyme A binding pocket [chemical binding]; other site 290402012004 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290402012005 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 290402012006 active site 290402012007 metal binding site [ion binding]; metal-binding site 290402012008 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402012009 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402012010 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 290402012011 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290402012012 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 290402012013 putative FMN binding site [chemical binding]; other site 290402012014 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 290402012015 Uncharacterized conserved protein [Function unknown]; Region: COG1284 290402012016 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 290402012017 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 290402012018 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290402012019 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402012020 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 290402012021 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402012022 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402012023 dimer interface [polypeptide binding]; other site 290402012024 putative CheW interface [polypeptide binding]; other site 290402012025 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 290402012026 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 290402012027 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402012028 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 290402012029 non-specific DNA binding site [nucleotide binding]; other site 290402012030 salt bridge; other site 290402012031 sequence-specific DNA binding site [nucleotide binding]; other site 290402012032 Domain of unknown function (DUF955); Region: DUF955; cl01076 290402012033 Cache domain; Region: Cache_1; pfam02743 290402012034 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 290402012035 dimerization interface [polypeptide binding]; other site 290402012036 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402012037 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402012038 dimer interface [polypeptide binding]; other site 290402012039 putative CheW interface [polypeptide binding]; other site 290402012040 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 290402012041 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 290402012042 active site 290402012043 catalytic residues [active] 290402012044 Surface antigen [General function prediction only]; Region: COG3942 290402012045 CHAP domain; Region: CHAP; pfam05257 290402012046 Accessory gene regulator B; Region: AgrB; pfam04647 290402012047 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402012048 ATP binding site [chemical binding]; other site 290402012049 Mg2+ binding site [ion binding]; other site 290402012050 G-X-G motif; other site 290402012051 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 290402012052 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402012053 active site 290402012054 phosphorylation site [posttranslational modification] 290402012055 intermolecular recognition site; other site 290402012056 dimerization interface [polypeptide binding]; other site 290402012057 LytTr DNA-binding domain; Region: LytTR; smart00850 290402012058 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 290402012059 binding surface 290402012060 TPR motif; other site 290402012061 Tetratricopeptide repeat; Region: TPR_6; pfam13174 290402012062 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290402012063 FAD binding domain; Region: FAD_binding_4; pfam01565 290402012064 Berberine and berberine like; Region: BBE; pfam08031 290402012065 Small acid-soluble spore protein H family; Region: SspH; pfam08141 290402012066 Protein of unknown function (DUF2167); Region: DUF2167; pfam09935 290402012067 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 290402012068 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 290402012069 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290402012070 DNA binding residues [nucleotide binding] 290402012071 putative dimer interface [polypeptide binding]; other site 290402012072 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 290402012073 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290402012074 active site 290402012075 catalytic tetrad [active] 290402012076 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 290402012077 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290402012078 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 290402012079 Walker A/P-loop; other site 290402012080 ATP binding site [chemical binding]; other site 290402012081 Q-loop/lid; other site 290402012082 ABC transporter signature motif; other site 290402012083 Walker B; other site 290402012084 D-loop; other site 290402012085 H-loop/switch region; other site 290402012086 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290402012087 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 290402012088 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290402012089 Walker A/P-loop; other site 290402012090 ATP binding site [chemical binding]; other site 290402012091 Q-loop/lid; other site 290402012092 ABC transporter signature motif; other site 290402012093 Walker B; other site 290402012094 D-loop; other site 290402012095 H-loop/switch region; other site 290402012096 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290402012097 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 290402012098 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 290402012099 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 290402012100 dimer interface [polypeptide binding]; other site 290402012101 conserved gate region; other site 290402012102 putative PBP binding loops; other site 290402012103 ABC-ATPase subunit interface; other site 290402012104 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290402012105 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 290402012106 dimer interface [polypeptide binding]; other site 290402012107 conserved gate region; other site 290402012108 putative PBP binding loops; other site 290402012109 ABC-ATPase subunit interface; other site 290402012110 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 290402012111 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 290402012112 peptide binding site [polypeptide binding]; other site 290402012113 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 290402012114 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 290402012115 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 290402012116 dimer interface [polypeptide binding]; other site 290402012117 phosphorylation site [posttranslational modification] 290402012118 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402012119 ATP binding site [chemical binding]; other site 290402012120 Mg2+ binding site [ion binding]; other site 290402012121 G-X-G motif; other site 290402012122 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 290402012123 beta-galactosidase; Region: BGL; TIGR03356 290402012124 Transposase domain (DUF772); Region: DUF772; pfam05598 290402012125 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402012126 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 290402012127 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 290402012128 AAA domain; Region: AAA_17; pfam13207 290402012129 AAA domain; Region: AAA_18; pfam13238 290402012130 CAAX protease self-immunity; Region: Abi; pfam02517 290402012131 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 290402012132 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 290402012133 dimer interface [polypeptide binding]; other site 290402012134 active site 290402012135 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402012136 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402012137 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402012138 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 290402012139 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 290402012140 Domain of unknown function DUF21; Region: DUF21; pfam01595 290402012141 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 290402012142 Transporter associated domain; Region: CorC_HlyC; smart01091 290402012143 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402012144 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402012145 ligand binding site [chemical binding]; other site 290402012146 calcium binding site [ion binding]; other site 290402012147 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 290402012148 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 290402012149 Catalytic site [active] 290402012150 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 290402012151 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290402012152 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 290402012153 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290402012154 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 290402012155 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 290402012156 S-adenosylmethionine binding site [chemical binding]; other site 290402012157 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 290402012158 putative active site [active] 290402012159 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 290402012160 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 290402012161 4Fe-4S binding domain; Region: Fer4; pfam00037 290402012162 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290402012163 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 290402012164 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402012165 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402012166 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402012167 Clp protease; Region: CLP_protease; pfam00574 290402012168 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 290402012169 oligomer interface [polypeptide binding]; other site 290402012170 active site residues [active] 290402012171 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 290402012172 active site 290402012173 catalytic site [active] 290402012174 substrate binding site [chemical binding]; other site 290402012175 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 290402012176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402012177 active site 290402012178 phosphorylation site [posttranslational modification] 290402012179 intermolecular recognition site; other site 290402012180 dimerization interface [polypeptide binding]; other site 290402012181 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 290402012182 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 290402012183 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 290402012184 putative active site [active] 290402012185 heme pocket [chemical binding]; other site 290402012186 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402012187 ATP binding site [chemical binding]; other site 290402012188 Mg2+ binding site [ion binding]; other site 290402012189 G-X-G motif; other site 290402012190 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290402012191 nucleotide binding site [chemical binding]; other site 290402012192 Acetokinase family; Region: Acetate_kinase; cl17229 290402012193 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 290402012194 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 290402012195 Malic enzyme, N-terminal domain; Region: malic; pfam00390 290402012196 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 290402012197 putative NAD(P) binding site [chemical binding]; other site 290402012198 TraX protein; Region: TraX; pfam05857 290402012199 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290402012200 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 290402012201 putative DNA binding site [nucleotide binding]; other site 290402012202 putative Zn2+ binding site [ion binding]; other site 290402012203 AsnC family; Region: AsnC_trans_reg; pfam01037 290402012204 Uncharacterized conserved protein [Function unknown]; Region: COG2128 290402012205 Heme NO binding; Region: HNOB; pfam07700 290402012206 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402012207 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402012208 dimer interface [polypeptide binding]; other site 290402012209 putative CheW interface [polypeptide binding]; other site 290402012210 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 290402012211 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402012212 DNA-binding site [nucleotide binding]; DNA binding site 290402012213 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 290402012214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402012215 homodimer interface [polypeptide binding]; other site 290402012216 catalytic residue [active] 290402012217 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 290402012218 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402012219 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290402012220 Response regulator receiver domain; Region: Response_reg; pfam00072 290402012221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402012222 active site 290402012223 phosphorylation site [posttranslational modification] 290402012224 intermolecular recognition site; other site 290402012225 dimerization interface [polypeptide binding]; other site 290402012226 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 290402012227 dimer interface [polypeptide binding]; other site 290402012228 phosphorylation site [posttranslational modification] 290402012229 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402012230 ATP binding site [chemical binding]; other site 290402012231 Mg2+ binding site [ion binding]; other site 290402012232 G-X-G motif; other site 290402012233 Response regulator receiver domain; Region: Response_reg; pfam00072 290402012234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402012235 active site 290402012236 phosphorylation site [posttranslational modification] 290402012237 intermolecular recognition site; other site 290402012238 dimerization interface [polypeptide binding]; other site 290402012239 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402012240 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 290402012241 dimerization interface [polypeptide binding]; other site 290402012242 PAS domain; Region: PAS; smart00091 290402012243 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 290402012244 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 290402012245 dimerization interface [polypeptide binding]; other site 290402012246 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402012247 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402012248 dimer interface [polypeptide binding]; other site 290402012249 putative CheW interface [polypeptide binding]; other site 290402012250 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 290402012251 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 290402012252 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 290402012253 putative binding surface; other site 290402012254 active site 290402012255 P2 response regulator binding domain; Region: P2; pfam07194 290402012256 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 290402012257 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402012258 ATP binding site [chemical binding]; other site 290402012259 Mg2+ binding site [ion binding]; other site 290402012260 G-X-G motif; other site 290402012261 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 290402012262 Response regulator receiver domain; Region: Response_reg; pfam00072 290402012263 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402012264 active site 290402012265 phosphorylation site [posttranslational modification] 290402012266 intermolecular recognition site; other site 290402012267 dimerization interface [polypeptide binding]; other site 290402012268 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 290402012269 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 290402012270 active site 290402012271 motif I; other site 290402012272 motif II; other site 290402012273 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 290402012274 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 290402012275 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 290402012276 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 290402012277 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 290402012278 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 290402012279 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 290402012280 active site 290402012281 metal binding site [ion binding]; metal-binding site 290402012282 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290402012283 EamA-like transporter family; Region: EamA; pfam00892 290402012284 EamA-like transporter family; Region: EamA; pfam00892 290402012285 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 290402012286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 290402012287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 290402012288 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 290402012289 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 290402012290 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 290402012291 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 290402012292 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 290402012293 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 290402012294 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 290402012295 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 290402012296 FeS/SAM binding site; other site 290402012297 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 290402012298 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 290402012299 active site 290402012300 Predicted membrane protein [Function unknown]; Region: COG4129 290402012301 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 290402012302 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 290402012303 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 290402012304 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402012305 DNA-binding site [nucleotide binding]; DNA binding site 290402012306 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 290402012307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402012308 homodimer interface [polypeptide binding]; other site 290402012309 catalytic residue [active] 290402012310 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 290402012311 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 290402012312 NAD binding site [chemical binding]; other site 290402012313 sugar binding site [chemical binding]; other site 290402012314 divalent metal binding site [ion binding]; other site 290402012315 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402012316 dimer interface [polypeptide binding]; other site 290402012317 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 290402012318 putative active site [active] 290402012319 YdjC motif; other site 290402012320 Mg binding site [ion binding]; other site 290402012321 putative homodimer interface [polypeptide binding]; other site 290402012322 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 290402012323 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 290402012324 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 290402012325 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 290402012326 TPP-binding site [chemical binding]; other site 290402012327 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 290402012328 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 290402012329 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 290402012330 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 290402012331 dimer interface [polypeptide binding]; other site 290402012332 PYR/PP interface [polypeptide binding]; other site 290402012333 TPP binding site [chemical binding]; other site 290402012334 substrate binding site [chemical binding]; other site 290402012335 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 290402012336 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 290402012337 putative hexamer interface [polypeptide binding]; other site 290402012338 putative hexagonal pore; other site 290402012339 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 290402012340 putative hexamer interface [polypeptide binding]; other site 290402012341 putative hexagonal pore; other site 290402012342 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 290402012343 SLBB domain; Region: SLBB; pfam10531 290402012344 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 290402012345 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 290402012346 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 290402012347 putative catalytic cysteine [active] 290402012348 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 290402012349 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290402012350 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 290402012351 Propanediol utilisation protein PduL; Region: PduL; pfam06130 290402012352 Propanediol utilisation protein PduL; Region: PduL; pfam06130 290402012353 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 290402012354 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 290402012355 Hexamer interface [polypeptide binding]; other site 290402012356 Hexagonal pore residue; other site 290402012357 S-adenosylmethionine synthetase; Validated; Region: PRK05250 290402012358 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 290402012359 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 290402012360 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 290402012361 Response regulator receiver domain; Region: Response_reg; pfam00072 290402012362 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402012363 active site 290402012364 phosphorylation site [posttranslational modification] 290402012365 intermolecular recognition site; other site 290402012366 dimerization interface [polypeptide binding]; other site 290402012367 Helix-turn-helix domain; Region: HTH_18; pfam12833 290402012368 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402012369 Sensory domain found in PocR; Region: PocR; pfam10114 290402012370 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 290402012371 Histidine kinase; Region: His_kinase; pfam06580 290402012372 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402012373 ATP binding site [chemical binding]; other site 290402012374 Mg2+ binding site [ion binding]; other site 290402012375 G-X-G motif; other site 290402012376 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 290402012377 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 290402012378 putative active site [active] 290402012379 metal binding site [ion binding]; metal-binding site 290402012380 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 290402012381 putative catalytic cysteine [active] 290402012382 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 290402012383 Hexamer/Pentamer interface [polypeptide binding]; other site 290402012384 central pore; other site 290402012385 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 290402012386 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 290402012387 Hexamer interface [polypeptide binding]; other site 290402012388 Hexagonal pore residue; other site 290402012389 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 290402012390 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 290402012391 Hexamer interface [polypeptide binding]; other site 290402012392 Putative hexagonal pore residue; other site 290402012393 propanediol utilization protein PduB; Provisional; Region: PRK15415 290402012394 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 290402012395 putative hexamer interface [polypeptide binding]; other site 290402012396 putative hexagonal pore; other site 290402012397 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 290402012398 putative hexamer interface [polypeptide binding]; other site 290402012399 putative hexagonal pore; other site 290402012400 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 290402012401 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 290402012402 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 290402012403 FeS/SAM binding site; other site 290402012404 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 290402012405 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 290402012406 dimer interface [polypeptide binding]; other site 290402012407 active site 290402012408 glycine loop; other site 290402012409 intracellular protease, PfpI family; Region: PfpI; TIGR01382 290402012410 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 290402012411 conserved cys residue [active] 290402012412 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 290402012413 G1 box; other site 290402012414 GTP/Mg2+ binding site [chemical binding]; other site 290402012415 G2 box; other site 290402012416 Switch I region; other site 290402012417 G3 box; other site 290402012418 Switch II region; other site 290402012419 G4 box; other site 290402012420 G5 box; other site 290402012421 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 290402012422 putative hexamer interface [polypeptide binding]; other site 290402012423 putative hexagonal pore; other site 290402012424 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 290402012425 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 290402012426 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 290402012427 active site 290402012428 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 290402012429 Uncharacterized conserved protein [Function unknown]; Region: COG2013 290402012430 manganese transport transcriptional regulator; Provisional; Region: PRK03902 290402012431 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 290402012432 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 290402012433 manganese transport protein MntH; Reviewed; Region: PRK00701 290402012434 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 290402012435 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 290402012436 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 290402012437 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 290402012438 NAD binding site [chemical binding]; other site 290402012439 dimer interface [polypeptide binding]; other site 290402012440 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402012441 substrate binding site [chemical binding]; other site 290402012442 DNA binding residues [nucleotide binding] 290402012443 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290402012444 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 290402012445 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 290402012446 Mor transcription activator family; Region: Mor; cl02360 290402012447 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 290402012448 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290402012449 substrate binding site [chemical binding]; other site 290402012450 dimer interface [polypeptide binding]; other site 290402012451 ATP binding site [chemical binding]; other site 290402012452 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 290402012453 dimerization interface [polypeptide binding]; other site 290402012454 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402012455 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402012456 dimer interface [polypeptide binding]; other site 290402012457 putative CheW interface [polypeptide binding]; other site 290402012458 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 290402012459 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 290402012460 ligand binding site [chemical binding]; other site 290402012461 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 290402012462 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 290402012463 nucleotide binding site/active site [active] 290402012464 HIT family signature motif; other site 290402012465 catalytic residue [active] 290402012466 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 290402012467 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 290402012468 Glucuronate isomerase; Region: UxaC; pfam02614 290402012469 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 290402012470 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 290402012471 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 290402012472 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 290402012473 mannonate dehydratase; Provisional; Region: PRK03906 290402012474 mannonate dehydratase; Region: uxuA; TIGR00695 290402012475 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290402012476 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402012477 DNA-binding site [nucleotide binding]; DNA binding site 290402012478 FCD domain; Region: FCD; pfam07729 290402012479 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402012480 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402012481 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402012482 dimer interface [polypeptide binding]; other site 290402012483 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 290402012484 putative CheW interface [polypeptide binding]; other site 290402012485 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 290402012486 hypothetical protein; Provisional; Region: PRK11622 290402012487 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 290402012488 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 290402012489 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290402012490 Coenzyme A binding pocket [chemical binding]; other site 290402012491 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 290402012492 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 290402012493 active site 290402012494 NAD binding site [chemical binding]; other site 290402012495 metal binding site [ion binding]; metal-binding site 290402012496 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 290402012497 Dehydratase family; Region: ILVD_EDD; pfam00920 290402012498 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290402012499 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402012500 DNA-binding site [nucleotide binding]; DNA binding site 290402012501 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 290402012502 Amino acid permease; Region: AA_permease_2; pfam13520 290402012503 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 290402012504 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290402012505 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 290402012506 putative Zn2+ binding site [ion binding]; other site 290402012507 putative DNA binding site [nucleotide binding]; other site 290402012508 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402012509 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402012510 putative substrate translocation pore; other site 290402012511 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402012512 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 290402012513 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 290402012514 carboxyltransferase (CT) interaction site; other site 290402012515 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402012516 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290402012517 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290402012518 HlyD family secretion protein; Region: HlyD_3; pfam13437 290402012519 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 290402012520 dimerization interface [polypeptide binding]; other site 290402012521 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402012522 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 290402012523 dimer interface [polypeptide binding]; other site 290402012524 phosphorylation site [posttranslational modification] 290402012525 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402012526 ATP binding site [chemical binding]; other site 290402012527 Mg2+ binding site [ion binding]; other site 290402012528 G-X-G motif; other site 290402012529 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402012530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402012531 active site 290402012532 phosphorylation site [posttranslational modification] 290402012533 intermolecular recognition site; other site 290402012534 dimerization interface [polypeptide binding]; other site 290402012535 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 290402012536 DNA binding site [nucleotide binding] 290402012537 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 290402012538 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 290402012539 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290402012540 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290402012541 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 290402012542 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 290402012543 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 290402012544 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290402012545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 290402012546 manganese transport transcriptional regulator; Provisional; Region: PRK03902 290402012547 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 290402012548 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402012549 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402012550 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 290402012551 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 290402012552 catalytic loop [active] 290402012553 iron binding site [ion binding]; other site 290402012554 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 290402012555 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 290402012556 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 290402012557 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 290402012558 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 290402012559 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 290402012560 dimer interface [polypeptide binding]; other site 290402012561 [2Fe-2S] cluster binding site [ion binding]; other site 290402012562 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 290402012563 SLBB domain; Region: SLBB; pfam10531 290402012564 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 290402012565 4Fe-4S binding domain; Region: Fer4; pfam00037 290402012566 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 290402012567 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 290402012568 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 290402012569 putative dimer interface [polypeptide binding]; other site 290402012570 [2Fe-2S] cluster binding site [ion binding]; other site 290402012571 alanine racemase; Reviewed; Region: alr; PRK00053 290402012572 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 290402012573 active site 290402012574 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290402012575 dimer interface [polypeptide binding]; other site 290402012576 substrate binding site [chemical binding]; other site 290402012577 catalytic residues [active] 290402012578 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 290402012579 G1 box; other site 290402012580 GTP/Mg2+ binding site [chemical binding]; other site 290402012581 G2 box; other site 290402012582 Switch I region; other site 290402012583 G3 box; other site 290402012584 Switch II region; other site 290402012585 Dynamin family; Region: Dynamin_N; pfam00350 290402012586 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 290402012587 GTP/Mg2+ binding site [chemical binding]; other site 290402012588 G1 box; other site 290402012589 G2 box; other site 290402012590 Switch I region; other site 290402012591 G3 box; other site 290402012592 Switch II region; other site 290402012593 G4 box; other site 290402012594 G5 box; other site 290402012595 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 290402012596 Dynamin family; Region: Dynamin_N; pfam00350 290402012597 G1 box; other site 290402012598 GTP/Mg2+ binding site [chemical binding]; other site 290402012599 G2 box; other site 290402012600 Switch I region; other site 290402012601 G3 box; other site 290402012602 Switch II region; other site 290402012603 G4 box; other site 290402012604 G5 box; other site 290402012605 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 290402012606 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 290402012607 homodimer interface [polypeptide binding]; other site 290402012608 substrate-cofactor binding pocket; other site 290402012609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402012610 catalytic residue [active] 290402012611 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 290402012612 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 290402012613 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 290402012614 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 290402012615 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 290402012616 glutamine binding [chemical binding]; other site 290402012617 catalytic triad [active] 290402012618 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 290402012619 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 290402012620 S-adenosylmethionine binding site [chemical binding]; other site 290402012621 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 290402012622 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 290402012623 putative RNA binding site [nucleotide binding]; other site 290402012624 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 290402012625 S-adenosylmethionine binding site [chemical binding]; other site 290402012626 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 290402012627 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 290402012628 putative dimer interface [polypeptide binding]; other site 290402012629 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402012630 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402012631 dimer interface [polypeptide binding]; other site 290402012632 putative CheW interface [polypeptide binding]; other site 290402012633 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 290402012634 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402012635 putative substrate translocation pore; other site 290402012636 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 290402012637 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 290402012638 inhibitor binding site; inhibition site 290402012639 active site 290402012640 Dehydratase family; Region: ILVD_EDD; pfam00920 290402012641 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 290402012642 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 290402012643 inhibitor site; inhibition site 290402012644 active site 290402012645 dimer interface [polypeptide binding]; other site 290402012646 catalytic residue [active] 290402012647 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 290402012648 Transcriptional regulator [Transcription]; Region: IclR; COG1414 290402012649 Bacterial transcriptional regulator; Region: IclR; pfam01614 290402012650 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290402012651 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 290402012652 DNA binding residues [nucleotide binding] 290402012653 dimer interface [polypeptide binding]; other site 290402012654 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 290402012655 S-adenosylmethionine binding site [chemical binding]; other site 290402012656 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 290402012657 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 290402012658 inhibitor-cofactor binding pocket; inhibition site 290402012659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402012660 catalytic residue [active] 290402012661 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 290402012662 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402012663 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 290402012664 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 290402012665 nucleotide binding site/active site [active] 290402012666 HIT family signature motif; other site 290402012667 catalytic residue [active] 290402012668 pullulanase, type I; Region: pulA_typeI; TIGR02104 290402012669 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 290402012670 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 290402012671 Ca binding site [ion binding]; other site 290402012672 active site 290402012673 catalytic site [active] 290402012674 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 290402012675 Alpha amylase catalytic domain found in eukaryotic and bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_euk_bac_CMD_like; cd11353 290402012676 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 290402012677 active site 290402012678 catalytic site [active] 290402012679 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 290402012680 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290402012681 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 290402012682 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402012683 Zn2+ binding site [ion binding]; other site 290402012684 Mg2+ binding site [ion binding]; other site 290402012685 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 290402012686 ArsC family; Region: ArsC; pfam03960 290402012687 catalytic residue [active] 290402012688 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 290402012689 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 290402012690 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 290402012691 intersubunit interface [polypeptide binding]; other site 290402012692 active site 290402012693 catalytic residue [active] 290402012694 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402012695 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 290402012696 TM-ABC transporter signature motif; other site 290402012697 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402012698 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 290402012699 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 290402012700 TM-ABC transporter signature motif; other site 290402012701 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 290402012702 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290402012703 Walker A/P-loop; other site 290402012704 ATP binding site [chemical binding]; other site 290402012705 Q-loop/lid; other site 290402012706 ABC transporter signature motif; other site 290402012707 Walker B; other site 290402012708 D-loop; other site 290402012709 H-loop/switch region; other site 290402012710 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290402012711 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 290402012712 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 290402012713 ligand binding site [chemical binding]; other site 290402012714 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402012715 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402012716 DNA binding site [nucleotide binding] 290402012717 domain linker motif; other site 290402012718 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 290402012719 dimerization interface [polypeptide binding]; other site 290402012720 ligand binding site [chemical binding]; other site 290402012721 hypothetical protein; Validated; Region: PRK07682 290402012722 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 290402012723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402012724 homodimer interface [polypeptide binding]; other site 290402012725 catalytic residue [active] 290402012726 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 290402012727 AsnC family; Region: AsnC_trans_reg; pfam01037 290402012728 Probable zinc-binding domain; Region: zf-trcl; pfam13451 290402012729 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 290402012730 Clp amino terminal domain; Region: Clp_N; pfam02861 290402012731 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 290402012732 Walker A motif; other site 290402012733 ATP binding site [chemical binding]; other site 290402012734 Walker B motif; other site 290402012735 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 290402012736 Walker A motif; other site 290402012737 ATP binding site [chemical binding]; other site 290402012738 Walker B motif; other site 290402012739 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 290402012740 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 290402012741 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 290402012742 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 290402012743 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290402012744 catalytic residue [active] 290402012745 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 290402012746 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 290402012747 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 290402012748 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290402012749 catalytic residue [active] 290402012750 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 290402012751 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 290402012752 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 290402012753 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 290402012754 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 290402012755 FeS/SAM binding site; other site 290402012756 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 290402012757 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402012758 active site turn [active] 290402012759 phosphorylation site [posttranslational modification] 290402012760 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290402012761 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 290402012762 DNA binding residues [nucleotide binding] 290402012763 dimerization interface [polypeptide binding]; other site 290402012764 heat shock protein 90; Provisional; Region: PRK05218 290402012765 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 290402012766 ATP binding site [chemical binding]; other site 290402012767 Mg2+ binding site [ion binding]; other site 290402012768 G-X-G motif; other site 290402012769 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402012770 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 290402012771 dimerization interface [polypeptide binding]; other site 290402012772 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402012773 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402012774 dimer interface [polypeptide binding]; other site 290402012775 putative CheW interface [polypeptide binding]; other site 290402012776 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 290402012777 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290402012778 DNA binding residues [nucleotide binding] 290402012779 dimer interface [polypeptide binding]; other site 290402012780 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 290402012781 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 290402012782 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402012783 Zn2+ binding site [ion binding]; other site 290402012784 Mg2+ binding site [ion binding]; other site 290402012785 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; pfam09579 290402012786 PAS fold; Region: PAS_4; pfam08448 290402012787 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 290402012788 putative active site [active] 290402012789 heme pocket [chemical binding]; other site 290402012790 PAS fold; Region: PAS_4; pfam08448 290402012791 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402012792 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402012793 metal binding site [ion binding]; metal-binding site 290402012794 active site 290402012795 I-site; other site 290402012796 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402012797 Zn2+ binding site [ion binding]; other site 290402012798 Mg2+ binding site [ion binding]; other site 290402012799 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402012800 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290402012801 Walker A/P-loop; other site 290402012802 ATP binding site [chemical binding]; other site 290402012803 Q-loop/lid; other site 290402012804 ABC transporter signature motif; other site 290402012805 Walker B; other site 290402012806 D-loop; other site 290402012807 H-loop/switch region; other site 290402012808 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402012809 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 290402012810 dimer interface [polypeptide binding]; other site 290402012811 phosphorylation site [posttranslational modification] 290402012812 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402012813 ATP binding site [chemical binding]; other site 290402012814 G-X-G motif; other site 290402012815 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402012816 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402012817 active site 290402012818 phosphorylation site [posttranslational modification] 290402012819 intermolecular recognition site; other site 290402012820 dimerization interface [polypeptide binding]; other site 290402012821 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 290402012822 DNA binding site [nucleotide binding] 290402012823 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 290402012824 dimer interface [polypeptide binding]; other site 290402012825 conserved gate region; other site 290402012826 putative PBP binding loops; other site 290402012827 ABC-ATPase subunit interface; other site 290402012828 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 290402012829 dimer interface [polypeptide binding]; other site 290402012830 conserved gate region; other site 290402012831 putative PBP binding loops; other site 290402012832 ABC-ATPase subunit interface; other site 290402012833 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 290402012834 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290402012835 substrate binding pocket [chemical binding]; other site 290402012836 membrane-bound complex binding site; other site 290402012837 hinge residues; other site 290402012838 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290402012839 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290402012840 Walker A/P-loop; other site 290402012841 ATP binding site [chemical binding]; other site 290402012842 Q-loop/lid; other site 290402012843 ABC transporter signature motif; other site 290402012844 Walker B; other site 290402012845 D-loop; other site 290402012846 H-loop/switch region; other site 290402012847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402012848 Response regulator receiver domain; Region: Response_reg; pfam00072 290402012849 active site 290402012850 phosphorylation site [posttranslational modification] 290402012851 intermolecular recognition site; other site 290402012852 dimerization interface [polypeptide binding]; other site 290402012853 YcbB domain; Region: YcbB; pfam08664 290402012854 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402012855 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402012856 ATP binding site [chemical binding]; other site 290402012857 G-X-G motif; other site 290402012858 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 290402012859 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 290402012860 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 290402012861 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 290402012862 non-specific DNA binding site [nucleotide binding]; other site 290402012863 salt bridge; other site 290402012864 sequence-specific DNA binding site [nucleotide binding]; other site 290402012865 Cupin domain; Region: Cupin_2; pfam07883 290402012866 Membrane transport protein; Region: Mem_trans; cl09117 290402012867 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 290402012868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402012869 active site 290402012870 phosphorylation site [posttranslational modification] 290402012871 intermolecular recognition site; other site 290402012872 CheB methylesterase; Region: CheB_methylest; pfam01339 290402012873 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 290402012874 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 290402012875 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402012876 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402012877 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402012878 dimer interface [polypeptide binding]; other site 290402012879 putative CheW interface [polypeptide binding]; other site 290402012880 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402012881 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402012882 dimer interface [polypeptide binding]; other site 290402012883 putative CheW interface [polypeptide binding]; other site 290402012884 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402012885 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 290402012886 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 290402012887 putative binding surface; other site 290402012888 active site 290402012889 P2 response regulator binding domain; Region: P2; pfam07194 290402012890 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 290402012891 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402012892 ATP binding site [chemical binding]; other site 290402012893 Mg2+ binding site [ion binding]; other site 290402012894 G-X-G motif; other site 290402012895 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 290402012896 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 290402012897 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 290402012898 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402012899 Zn2+ binding site [ion binding]; other site 290402012900 Mg2+ binding site [ion binding]; other site 290402012901 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 290402012902 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 290402012903 CysD dimerization site [polypeptide binding]; other site 290402012904 G1 box; other site 290402012905 putative GEF interaction site [polypeptide binding]; other site 290402012906 GTP/Mg2+ binding site [chemical binding]; other site 290402012907 Switch I region; other site 290402012908 G2 box; other site 290402012909 G3 box; other site 290402012910 Switch II region; other site 290402012911 G4 box; other site 290402012912 G5 box; other site 290402012913 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 290402012914 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 290402012915 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 290402012916 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 290402012917 Active Sites [active] 290402012918 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 290402012919 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290402012920 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 290402012921 L-aspartate oxidase; Provisional; Region: PRK06175 290402012922 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 290402012923 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 290402012924 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 290402012925 Walker A/P-loop; other site 290402012926 ATP binding site [chemical binding]; other site 290402012927 Q-loop/lid; other site 290402012928 ABC transporter signature motif; other site 290402012929 Walker B; other site 290402012930 D-loop; other site 290402012931 H-loop/switch region; other site 290402012932 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 290402012933 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 290402012934 dimer interface [polypeptide binding]; other site 290402012935 conserved gate region; other site 290402012936 putative PBP binding loops; other site 290402012937 ABC-ATPase subunit interface; other site 290402012938 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 290402012939 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 290402012940 dimer interface [polypeptide binding]; other site 290402012941 conserved gate region; other site 290402012942 putative PBP binding loops; other site 290402012943 ABC-ATPase subunit interface; other site 290402012944 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 290402012945 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 290402012946 substrate binding pocket [chemical binding]; other site 290402012947 membrane-bound complex binding site; other site 290402012948 hinge residues; other site 290402012949 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 290402012950 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 290402012951 substrate binding pocket [chemical binding]; other site 290402012952 membrane-bound complex binding site; other site 290402012953 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 290402012954 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 290402012955 G1 box; other site 290402012956 GTP/Mg2+ binding site [chemical binding]; other site 290402012957 Switch I region; other site 290402012958 G2 box; other site 290402012959 G3 box; other site 290402012960 Switch II region; other site 290402012961 G4 box; other site 290402012962 G5 box; other site 290402012963 Nucleoside recognition; Region: Gate; pfam07670 290402012964 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 290402012965 Nucleoside recognition; Region: Gate; pfam07670 290402012966 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 290402012967 FeoA domain; Region: FeoA; pfam04023 290402012968 isocitrate dehydrogenase; Validated; Region: PRK08299 290402012969 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 290402012970 CAAX protease self-immunity; Region: Abi; pfam02517 290402012971 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 290402012972 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402012973 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 290402012974 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 290402012975 active site 290402012976 dimer interface [polypeptide binding]; other site 290402012977 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 290402012978 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 290402012979 active site 290402012980 FMN binding site [chemical binding]; other site 290402012981 substrate binding site [chemical binding]; other site 290402012982 3Fe-4S cluster binding site [ion binding]; other site 290402012983 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 290402012984 domain interface; other site 290402012985 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 290402012986 ANTAR domain; Region: ANTAR; pfam03861 290402012987 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 290402012988 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 290402012989 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290402012990 aspartate kinase; Reviewed; Region: PRK09034 290402012991 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 290402012992 nucleotide binding site [chemical binding]; other site 290402012993 substrate binding site [chemical binding]; other site 290402012994 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 290402012995 allosteric regulatory residue; other site 290402012996 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 290402012997 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 290402012998 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 290402012999 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 290402013000 metal ion-dependent adhesion site (MIDAS); other site 290402013001 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 290402013002 metal ion-dependent adhesion site (MIDAS); other site 290402013003 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 290402013004 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 290402013005 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 290402013006 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 290402013007 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 290402013008 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 290402013009 Cell division protein FtsA; Region: FtsA; pfam14450 290402013010 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 290402013011 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 290402013012 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 290402013013 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 290402013014 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 290402013015 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 290402013016 Walker A motif; other site 290402013017 ATP binding site [chemical binding]; other site 290402013018 Walker B motif; other site 290402013019 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 290402013020 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 290402013021 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402013022 hypothetical protein; Validated; Region: PRK00110 290402013023 Uncharacterized conserved protein [Function unknown]; Region: COG1739 290402013024 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 290402013025 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 290402013026 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 290402013027 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402013028 DNA-binding site [nucleotide binding]; DNA binding site 290402013029 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 290402013030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402013031 homodimer interface [polypeptide binding]; other site 290402013032 catalytic residue [active] 290402013033 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 290402013034 active site 290402013035 NTP binding site [chemical binding]; other site 290402013036 metal binding triad [ion binding]; metal-binding site 290402013037 antibiotic binding site [chemical binding]; other site 290402013038 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 290402013039 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 290402013040 HflX GTPase family; Region: HflX; cd01878 290402013041 G1 box; other site 290402013042 GTP/Mg2+ binding site [chemical binding]; other site 290402013043 Switch I region; other site 290402013044 G2 box; other site 290402013045 G3 box; other site 290402013046 Switch II region; other site 290402013047 G4 box; other site 290402013048 G5 box; other site 290402013049 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290402013050 active site 290402013051 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 290402013052 Transglycosylase; Region: Transgly; pfam00912 290402013053 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 290402013054 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 290402013055 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 290402013056 active site 290402013057 multimer interface [polypeptide binding]; other site 290402013058 Acylphosphatase; Region: Acylphosphatase; cl00551 290402013059 putative hydrolase; Validated; Region: PRK09248 290402013060 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 290402013061 active site 290402013062 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 290402013063 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 290402013064 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 290402013065 DXD motif; other site 290402013066 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 290402013067 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 290402013068 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402013069 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402013070 metal binding site [ion binding]; metal-binding site 290402013071 active site 290402013072 I-site; other site 290402013073 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 290402013074 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 290402013075 active site 290402013076 motif I; other site 290402013077 motif II; other site 290402013078 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290402013079 DNA polymerase IV; Provisional; Region: PRK14133 290402013080 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 290402013081 active site 290402013082 DNA binding site [nucleotide binding] 290402013083 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 290402013084 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 290402013085 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290402013086 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 290402013087 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 290402013088 motif II; other site 290402013089 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 290402013090 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402013091 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 290402013092 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 290402013093 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 290402013094 DRTGG domain; Region: DRTGG; pfam07085 290402013095 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 290402013096 DHHA2 domain; Region: DHHA2; pfam02833 290402013097 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 290402013098 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 290402013099 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290402013100 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 290402013101 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290402013102 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 290402013103 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402013104 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 290402013105 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 290402013106 DNA binding residues [nucleotide binding] 290402013107 Flagellar protein YcgR; Region: YcgR_2; pfam12945 290402013108 PilZ domain; Region: PilZ; pfam07238 290402013109 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 290402013110 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 290402013111 P-loop; other site 290402013112 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 290402013113 Protein of unknown function, DUF258; Region: DUF258; pfam03193 290402013114 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 290402013115 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 290402013116 FHIPEP family; Region: FHIPEP; pfam00771 290402013117 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 290402013118 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 290402013119 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 290402013120 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 290402013121 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 290402013122 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 290402013123 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 290402013124 Flagellar protein (FlbD); Region: FlbD; pfam06289 290402013125 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 290402013126 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 290402013127 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 290402013128 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290402013129 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 290402013130 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 290402013131 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 290402013132 Flagellar FliJ protein; Region: FliJ; pfam02050 290402013133 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 290402013134 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 290402013135 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 290402013136 Walker A motif/ATP binding site; other site 290402013137 Walker B motif; other site 290402013138 type III secretion system protein; Reviewed; Region: PRK06937 290402013139 Flagellar assembly protein FliH; Region: FliH; pfam02108 290402013140 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 290402013141 FliG C-terminal domain; Region: FliG_C; pfam01706 290402013142 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 290402013143 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 290402013144 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 290402013145 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 290402013146 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12630 290402013147 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 290402013148 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290402013149 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 290402013150 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 290402013151 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 290402013152 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290402013153 ligand binding site [chemical binding]; other site 290402013154 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 290402013155 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 290402013156 flagellin; Provisional; Region: PRK12804 290402013157 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 290402013158 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 290402013159 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 290402013160 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 290402013161 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 290402013162 pseudaminic acid synthase; Region: PseI; TIGR03586 290402013163 NeuB family; Region: NeuB; pfam03102 290402013164 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 290402013165 NeuB binding interface [polypeptide binding]; other site 290402013166 putative substrate binding site [chemical binding]; other site 290402013167 (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 290402013168 dimer interaction site [polypeptide binding]; other site 290402013169 substrate-binding tunnel; other site 290402013170 active site 290402013171 catalytic site [active] 290402013172 substrate binding site [chemical binding]; other site 290402013173 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 290402013174 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290402013175 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 290402013176 ligand binding site; other site 290402013177 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 290402013178 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 290402013179 NAD(P) binding site [chemical binding]; other site 290402013180 homodimer interface [polypeptide binding]; other site 290402013181 substrate binding site [chemical binding]; other site 290402013182 active site 290402013183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 290402013184 Putative transposase; Region: Y2_Tnp; pfam04986 290402013185 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 290402013186 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 290402013187 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402013188 DNA binding site [nucleotide binding] 290402013189 Integrase core domain; Region: rve; pfam00665 290402013190 transposase/IS protein; Provisional; Region: PRK09183 290402013191 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 290402013192 Walker A motif; other site 290402013193 ATP binding site [chemical binding]; other site 290402013194 Walker B motif; other site 290402013195 flagellin; Provisional; Region: PRK12804 290402013196 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 290402013197 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 290402013198 flagellar capping protein; Validated; Region: fliD; PRK07737 290402013199 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 290402013200 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 290402013201 Flagellar protein FliS; Region: FliS; cl00654 290402013202 FlaG protein; Region: FlaG; pfam03646 290402013203 carbon storage regulator; Provisional; Region: PRK01712 290402013204 flagellar assembly protein FliW; Provisional; Region: PRK13285 290402013205 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 290402013206 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 290402013207 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 290402013208 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 290402013209 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290402013210 FlgN protein; Region: FlgN; pfam05130 290402013211 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 290402013212 flagellar motor switch protein; Validated; Region: PRK08119 290402013213 CheC-like family; Region: CheC; pfam04509 290402013214 CheC-like family; Region: CheC; pfam04509 290402013215 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 290402013216 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 290402013217 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 290402013218 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 290402013219 Response regulator receiver domain; Region: Response_reg; pfam00072 290402013220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402013221 active site 290402013222 phosphorylation site [posttranslational modification] 290402013223 intermolecular recognition site; other site 290402013224 dimerization interface [polypeptide binding]; other site 290402013225 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 290402013226 CheC-like family; Region: CheC; pfam04509 290402013227 CheC-like family; Region: CheC; pfam04509 290402013228 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 290402013229 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 290402013230 putative binding surface; other site 290402013231 active site 290402013232 P2 response regulator binding domain; Region: P2; pfam07194 290402013233 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 290402013234 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402013235 ATP binding site [chemical binding]; other site 290402013236 Mg2+ binding site [ion binding]; other site 290402013237 G-X-G motif; other site 290402013238 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 290402013239 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 290402013240 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 290402013241 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 290402013242 S-adenosylmethionine binding site [chemical binding]; other site 290402013243 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 290402013244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402013245 active site 290402013246 phosphorylation site [posttranslational modification] 290402013247 intermolecular recognition site; other site 290402013248 dimerization interface [polypeptide binding]; other site 290402013249 CheB methylesterase; Region: CheB_methylest; pfam01339 290402013250 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13490 290402013251 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 290402013252 Uncharacterized conserved protein [Function unknown]; Region: COG1315 290402013253 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 290402013254 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 290402013255 substrate-cofactor binding pocket; other site 290402013256 homodimer interface [polypeptide binding]; other site 290402013257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402013258 catalytic residue [active] 290402013259 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 290402013260 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290402013261 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 290402013262 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 290402013263 aspartate aminotransferase; Provisional; Region: PRK05764 290402013264 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 290402013265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402013266 homodimer interface [polypeptide binding]; other site 290402013267 catalytic residue [active] 290402013268 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 290402013269 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 290402013270 dimer interface [polypeptide binding]; other site 290402013271 PYR/PP interface [polypeptide binding]; other site 290402013272 TPP binding site [chemical binding]; other site 290402013273 substrate binding site [chemical binding]; other site 290402013274 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290402013275 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 290402013276 Domain of unknown function; Region: EKR; smart00890 290402013277 4Fe-4S binding domain; Region: Fer4_6; pfam12837 290402013278 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 290402013279 TPP-binding site [chemical binding]; other site 290402013280 dimer interface [polypeptide binding]; other site 290402013281 flavodoxin; Provisional; Region: PRK05569 290402013282 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 290402013283 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 290402013284 active site 290402013285 homodimer interface [polypeptide binding]; other site 290402013286 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 290402013287 DHH family; Region: DHH; pfam01368 290402013288 DHHA1 domain; Region: DHHA1; pfam02272 290402013289 DJ-1 family protein; Region: not_thiJ; TIGR01383 290402013290 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 290402013291 conserved cys residue [active] 290402013292 DNA topoisomerase IV subunit A; Provisional; Region: PRK13979 290402013293 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 290402013294 CAP-like domain; other site 290402013295 active site 290402013296 primary dimer interface [polypeptide binding]; other site 290402013297 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290402013298 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290402013299 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 290402013300 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402013301 ATP binding site [chemical binding]; other site 290402013302 Mg2+ binding site [ion binding]; other site 290402013303 G-X-G motif; other site 290402013304 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 290402013305 anchoring element; other site 290402013306 dimer interface [polypeptide binding]; other site 290402013307 ATP binding site [chemical binding]; other site 290402013308 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 290402013309 active site 290402013310 metal binding site [ion binding]; metal-binding site 290402013311 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 290402013312 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 290402013313 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 290402013314 DXD motif; other site 290402013315 Rhomboid family; Region: Rhomboid; pfam01694 290402013316 oligoendopeptidase F; Region: pepF; TIGR00181 290402013317 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 290402013318 active site 290402013319 Zn binding site [ion binding]; other site 290402013320 Phosphopantetheine attachment site; Region: PP-binding; cl09936 290402013321 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 290402013322 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 290402013323 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 290402013324 acyl-activating enzyme (AAE) consensus motif; other site 290402013325 AMP binding site [chemical binding]; other site 290402013326 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 290402013327 DltD central region; Region: DltD_M; pfam04918 290402013328 DltD C-terminal region; Region: DltD_C; pfam04914 290402013329 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402013330 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 290402013331 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 290402013332 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 290402013333 ABC-ATPase subunit interface; other site 290402013334 dimer interface [polypeptide binding]; other site 290402013335 putative PBP binding regions; other site 290402013336 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 290402013337 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290402013338 catalytic residue [active] 290402013339 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290402013340 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 290402013341 PYR/PP interface [polypeptide binding]; other site 290402013342 dimer interface [polypeptide binding]; other site 290402013343 TPP binding site [chemical binding]; other site 290402013344 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 290402013345 TPP-binding site; other site 290402013346 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290402013347 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 290402013348 active site 290402013349 nucleotide binding site [chemical binding]; other site 290402013350 HIGH motif; other site 290402013351 KMSKS motif; other site 290402013352 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 290402013353 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 290402013354 tetramer interface [polypeptide binding]; other site 290402013355 active site 290402013356 Mg2+/Mn2+ binding site [ion binding]; other site 290402013357 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 290402013358 active site 290402013359 metal-binding site 290402013360 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 290402013361 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 290402013362 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290402013363 Walker A/P-loop; other site 290402013364 ATP binding site [chemical binding]; other site 290402013365 Q-loop/lid; other site 290402013366 ABC transporter signature motif; other site 290402013367 Walker B; other site 290402013368 D-loop; other site 290402013369 H-loop/switch region; other site 290402013370 Predicted transcriptional regulators [Transcription]; Region: COG1725 290402013371 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402013372 DNA-binding site [nucleotide binding]; DNA binding site 290402013373 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 290402013374 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 290402013375 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_3; cd06253 290402013376 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 290402013377 putative active site [active] 290402013378 Zn binding site [ion binding]; other site 290402013379 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_3; cd06253 290402013380 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 290402013381 putative active site [active] 290402013382 Zn binding site [ion binding]; other site 290402013383 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 290402013384 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 290402013385 inhibitor-cofactor binding pocket; inhibition site 290402013386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402013387 catalytic residue [active] 290402013388 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 290402013389 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 290402013390 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 290402013391 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 290402013392 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 290402013393 dimer interface [polypeptide binding]; other site 290402013394 conserved gate region; other site 290402013395 putative PBP binding loops; other site 290402013396 ABC-ATPase subunit interface; other site 290402013397 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 290402013398 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290402013399 substrate binding pocket [chemical binding]; other site 290402013400 membrane-bound complex binding site; other site 290402013401 hinge residues; other site 290402013402 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290402013403 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290402013404 Walker A/P-loop; other site 290402013405 ATP binding site [chemical binding]; other site 290402013406 Q-loop/lid; other site 290402013407 ABC transporter signature motif; other site 290402013408 Walker B; other site 290402013409 D-loop; other site 290402013410 H-loop/switch region; other site 290402013411 Predicted amidohydrolase [General function prediction only]; Region: COG0388 290402013412 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 290402013413 active site 290402013414 catalytic triad [active] 290402013415 dimer interface [polypeptide binding]; other site 290402013416 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 290402013417 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 290402013418 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 290402013419 putative active site [active] 290402013420 metal binding site [ion binding]; metal-binding site 290402013421 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 290402013422 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 290402013423 dimer interface [polypeptide binding]; other site 290402013424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402013425 catalytic residue [active] 290402013426 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 290402013427 putative FMN binding site [chemical binding]; other site 290402013428 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290402013429 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402013430 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402013431 alpha-galactosidase; Provisional; Region: PRK15076 290402013432 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 290402013433 NAD binding site [chemical binding]; other site 290402013434 sugar binding site [chemical binding]; other site 290402013435 divalent metal binding site [ion binding]; other site 290402013436 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402013437 dimer interface [polypeptide binding]; other site 290402013438 Domain of unknown function (DUF1874); Region: DUF1874; pfam08960 290402013439 spore photoproduct lyase; Region: photo_TT_lyase; TIGR04070 290402013440 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 290402013441 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402013442 Zn2+ binding site [ion binding]; other site 290402013443 Mg2+ binding site [ion binding]; other site 290402013444 AAA domain; Region: AAA_33; pfam13671 290402013445 RNA ligase; Region: RNA_ligase; pfam09414 290402013446 Short C-terminal domain; Region: SHOCT; pfam09851 290402013447 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 290402013448 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 290402013449 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 290402013450 Active_site [active] 290402013451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 290402013452 YwqJ-like deaminase; Region: YwqJ-deaminase; pfam14431 290402013453 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 290402013454 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 290402013455 RHS Repeat; Region: RHS_repeat; pfam05593 290402013456 RHS Repeat; Region: RHS_repeat; pfam05593 290402013457 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 290402013458 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 290402013459 RHS Repeat; Region: RHS_repeat; pfam05593 290402013460 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 290402013461 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 290402013462 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 290402013463 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290402013464 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290402013465 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290402013466 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290402013467 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 290402013468 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 290402013469 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 290402013470 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 290402013471 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 290402013472 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402013473 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402013474 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 290402013475 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402013476 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 290402013477 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 290402013478 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 290402013479 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290402013480 nucleotide binding site [chemical binding]; other site 290402013481 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 290402013482 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 290402013483 active site 290402013484 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 290402013485 phosphopeptide binding site; other site 290402013486 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 290402013487 phosphopeptide binding site; other site 290402013488 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 290402013489 HSP70 interaction site [polypeptide binding]; other site 290402013490 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 290402013491 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 290402013492 dimer interface [polypeptide binding]; other site 290402013493 active site 290402013494 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290402013495 catalytic residues [active] 290402013496 substrate binding site [chemical binding]; other site 290402013497 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 290402013498 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 290402013499 NAD(P) binding pocket [chemical binding]; other site 290402013500 spermidine synthase; Provisional; Region: PRK00811 290402013501 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 290402013502 S-adenosylmethionine binding site [chemical binding]; other site 290402013503 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 290402013504 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 290402013505 homodimer interface [polypeptide binding]; other site 290402013506 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402013507 catalytic residue [active] 290402013508 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 290402013509 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 290402013510 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 290402013511 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 290402013512 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 290402013513 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 290402013514 motif II; other site 290402013515 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 290402013516 galactokinase; Provisional; Region: PRK05322 290402013517 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 290402013518 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 290402013519 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 290402013520 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 290402013521 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 290402013522 NAD binding site [chemical binding]; other site 290402013523 homodimer interface [polypeptide binding]; other site 290402013524 active site 290402013525 substrate binding site [chemical binding]; other site 290402013526 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 290402013527 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 290402013528 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 290402013529 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402013530 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402013531 DNA binding site [nucleotide binding] 290402013532 domain linker motif; other site 290402013533 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 290402013534 dimerization interface [polypeptide binding]; other site 290402013535 ligand binding site [chemical binding]; other site 290402013536 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 290402013537 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 290402013538 FeS/SAM binding site; other site 290402013539 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 290402013540 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_cladeD; cd03379 290402013541 active site clefts [active] 290402013542 zinc binding site [ion binding]; other site 290402013543 dimer interface [polypeptide binding]; other site 290402013544 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402013545 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402013546 ligand binding site [chemical binding]; other site 290402013547 calcium binding site [ion binding]; other site 290402013548 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 290402013549 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402013550 ligand binding site [chemical binding]; other site 290402013551 calcium binding site [ion binding]; other site 290402013552 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 290402013553 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402013554 ligand binding site [chemical binding]; other site 290402013555 calcium binding site [ion binding]; other site 290402013556 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 290402013557 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402013558 Cache domain; Region: Cache_1; pfam02743 290402013559 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402013560 HAMP domain; Region: HAMP; pfam00672 290402013561 dimerization interface [polypeptide binding]; other site 290402013562 Histidine kinase; Region: His_kinase; pfam06580 290402013563 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402013564 ATP binding site [chemical binding]; other site 290402013565 Mg2+ binding site [ion binding]; other site 290402013566 G-X-G motif; other site 290402013567 Response regulator receiver domain; Region: Response_reg; pfam00072 290402013568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402013569 active site 290402013570 phosphorylation site [posttranslational modification] 290402013571 intermolecular recognition site; other site 290402013572 dimerization interface [polypeptide binding]; other site 290402013573 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402013574 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402013575 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402013576 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 290402013577 TM-ABC transporter signature motif; other site 290402013578 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290402013579 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290402013580 Walker A/P-loop; other site 290402013581 ATP binding site [chemical binding]; other site 290402013582 Q-loop/lid; other site 290402013583 ABC transporter signature motif; other site 290402013584 Walker B; other site 290402013585 D-loop; other site 290402013586 H-loop/switch region; other site 290402013587 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290402013588 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 290402013589 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402013590 ligand binding site [chemical binding]; other site 290402013591 calcium binding site [ion binding]; other site 290402013592 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402013593 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402013594 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 290402013595 dimerization interface [polypeptide binding]; other site 290402013596 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402013597 dimer interface [polypeptide binding]; other site 290402013598 putative CheW interface [polypeptide binding]; other site 290402013599 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402013600 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402013601 metal binding site [ion binding]; metal-binding site 290402013602 active site 290402013603 I-site; other site 290402013604 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 290402013605 Phage integrase family; Region: Phage_integrase; pfam00589 290402013606 active site 290402013607 DNA binding site [nucleotide binding] 290402013608 Int/Topo IB signature motif; other site 290402013609 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402013610 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402013611 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 290402013612 dimerization interface [polypeptide binding]; other site 290402013613 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402013614 dimer interface [polypeptide binding]; other site 290402013615 putative CheW interface [polypeptide binding]; other site 290402013616 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 290402013617 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 290402013618 FeS/SAM binding site; other site 290402013619 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 290402013620 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 290402013621 Melibiase; Region: Melibiase; pfam02065 290402013622 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 290402013623 Melibiase; Region: Melibiase; pfam02065 290402013624 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290402013625 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 290402013626 dimer interface [polypeptide binding]; other site 290402013627 conserved gate region; other site 290402013628 putative PBP binding loops; other site 290402013629 ABC-ATPase subunit interface; other site 290402013630 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 290402013631 dimer interface [polypeptide binding]; other site 290402013632 conserved gate region; other site 290402013633 putative PBP binding loops; other site 290402013634 ABC-ATPase subunit interface; other site 290402013635 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290402013636 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290402013637 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290402013638 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402013639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402013640 EDD domain protein, DegV family; Region: DegV; TIGR00762 290402013641 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 290402013642 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402013643 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 290402013644 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 290402013645 TM-ABC transporter signature motif; other site 290402013646 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 290402013647 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290402013648 Walker A/P-loop; other site 290402013649 ATP binding site [chemical binding]; other site 290402013650 Q-loop/lid; other site 290402013651 ABC transporter signature motif; other site 290402013652 Walker B; other site 290402013653 D-loop; other site 290402013654 H-loop/switch region; other site 290402013655 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290402013656 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 290402013657 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 290402013658 putative ligand binding site [chemical binding]; other site 290402013659 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 290402013660 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 290402013661 putative N- and C-terminal domain interface [polypeptide binding]; other site 290402013662 putative active site [active] 290402013663 MgATP binding site [chemical binding]; other site 290402013664 catalytic site [active] 290402013665 metal binding site [ion binding]; metal-binding site 290402013666 putative carbohydrate binding site [chemical binding]; other site 290402013667 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 290402013668 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 290402013669 TPP-binding site [chemical binding]; other site 290402013670 dimer interface [polypeptide binding]; other site 290402013671 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 290402013672 PYR/PP interface [polypeptide binding]; other site 290402013673 dimer interface [polypeptide binding]; other site 290402013674 TPP binding site [chemical binding]; other site 290402013675 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290402013676 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 290402013677 active site 290402013678 intersubunit interactions; other site 290402013679 catalytic residue [active] 290402013680 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 290402013681 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 290402013682 intersubunit interface [polypeptide binding]; other site 290402013683 active site 290402013684 Zn2+ binding site [ion binding]; other site 290402013685 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402013686 DNA-binding site [nucleotide binding]; DNA binding site 290402013687 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402013688 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 290402013689 putative dimerization interface [polypeptide binding]; other site 290402013690 putative ligand binding site [chemical binding]; other site 290402013691 L-arabinose isomerase; Provisional; Region: PRK02929 290402013692 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 290402013693 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 290402013694 trimer interface [polypeptide binding]; other site 290402013695 putative substrate binding site [chemical binding]; other site 290402013696 putative metal binding site [ion binding]; other site 290402013697 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 290402013698 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 290402013699 dimerization interface [polypeptide binding]; other site 290402013700 Histidine kinase; Region: His_kinase; pfam06580 290402013701 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402013702 ATP binding site [chemical binding]; other site 290402013703 Mg2+ binding site [ion binding]; other site 290402013704 G-X-G motif; other site 290402013705 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 290402013706 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402013707 TM-ABC transporter signature motif; other site 290402013708 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402013709 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 290402013710 TM-ABC transporter signature motif; other site 290402013711 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290402013712 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290402013713 Walker A/P-loop; other site 290402013714 ATP binding site [chemical binding]; other site 290402013715 Q-loop/lid; other site 290402013716 ABC transporter signature motif; other site 290402013717 Walker B; other site 290402013718 D-loop; other site 290402013719 H-loop/switch region; other site 290402013720 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290402013721 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 290402013722 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402013723 putative ligand binding site [chemical binding]; other site 290402013724 Periplasmic binding domain of two-component sensor kinase signaling systems; Region: PBP1_sensor_kinase_like; cd06308 290402013725 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402013726 putative ligand binding site [chemical binding]; other site 290402013727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402013728 Response regulator receiver domain; Region: Response_reg; pfam00072 290402013729 active site 290402013730 phosphorylation site [posttranslational modification] 290402013731 intermolecular recognition site; other site 290402013732 dimerization interface [polypeptide binding]; other site 290402013733 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402013734 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402013735 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402013736 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 290402013737 active site 290402013738 catalytic residues [active] 290402013739 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402013740 dimer interface [polypeptide binding]; other site 290402013741 putative CheW interface [polypeptide binding]; other site 290402013742 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 290402013743 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 290402013744 active site 290402013745 motif I; other site 290402013746 motif II; other site 290402013747 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290402013748 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290402013749 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402013750 DNA-binding site [nucleotide binding]; DNA binding site 290402013751 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 290402013752 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402013753 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402013754 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402013755 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 290402013756 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 290402013757 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 290402013758 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 290402013759 active site 290402013760 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 290402013761 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402013762 Zn2+ binding site [ion binding]; other site 290402013763 Mg2+ binding site [ion binding]; other site 290402013764 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 290402013765 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402013766 Zn2+ binding site [ion binding]; other site 290402013767 Mg2+ binding site [ion binding]; other site 290402013768 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 290402013769 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290402013770 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 290402013771 Soluble P-type ATPase [General function prediction only]; Region: COG4087 290402013772 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 290402013773 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 290402013774 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 290402013775 ATP binding site [chemical binding]; other site 290402013776 putative Mg++ binding site [ion binding]; other site 290402013777 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 290402013778 nucleotide binding region [chemical binding]; other site 290402013779 ATP-binding site [chemical binding]; other site 290402013780 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 290402013781 HRDC domain; Region: HRDC; pfam00570 290402013782 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 290402013783 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 290402013784 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 290402013785 DDE superfamily endonuclease; Region: DDE_3; pfam13358 290402013786 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 290402013787 Winged helix-turn helix; Region: HTH_29; pfam13551 290402013788 Homeodomain-like domain; Region: HTH_23; cl17451 290402013789 Homeodomain-like domain; Region: HTH_32; pfam13565 290402013790 Winged helix-turn helix; Region: HTH_33; pfam13592 290402013791 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 290402013792 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 290402013793 fructuronate transporter; Provisional; Region: PRK10034; cl15264 290402013794 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 290402013795 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402013796 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402013797 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 290402013798 iron binding site [ion binding]; other site 290402013799 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 290402013800 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290402013801 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 290402013802 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 290402013803 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 290402013804 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402013805 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402013806 Response regulator receiver domain; Region: Response_reg; pfam00072 290402013807 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402013808 active site 290402013809 phosphorylation site [posttranslational modification] 290402013810 intermolecular recognition site; other site 290402013811 dimerization interface [polypeptide binding]; other site 290402013812 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 290402013813 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 290402013814 putative active site [active] 290402013815 heme pocket [chemical binding]; other site 290402013816 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 290402013817 dimer interface [polypeptide binding]; other site 290402013818 phosphorylation site [posttranslational modification] 290402013819 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402013820 ATP binding site [chemical binding]; other site 290402013821 Mg2+ binding site [ion binding]; other site 290402013822 G-X-G motif; other site 290402013823 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402013824 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 290402013825 dimerization interface [polypeptide binding]; other site 290402013826 PAS domain S-box; Region: sensory_box; TIGR00229 290402013827 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 290402013828 putative active site [active] 290402013829 heme pocket [chemical binding]; other site 290402013830 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402013831 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 290402013832 dimer interface [polypeptide binding]; other site 290402013833 phosphorylation site [posttranslational modification] 290402013834 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402013835 ATP binding site [chemical binding]; other site 290402013836 Mg2+ binding site [ion binding]; other site 290402013837 G-X-G motif; other site 290402013838 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 290402013839 TMAO reductase system periplasmic protein TorT; Region: TMAO_TorT; TIGR02955 290402013840 putative ligand binding site [chemical binding]; other site 290402013841 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 290402013842 thiamine phosphate binding site [chemical binding]; other site 290402013843 active site 290402013844 pyrophosphate binding site [ion binding]; other site 290402013845 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 290402013846 substrate binding site [chemical binding]; other site 290402013847 multimerization interface [polypeptide binding]; other site 290402013848 ATP binding site [chemical binding]; other site 290402013849 ThiC family; Region: ThiC; pfam01964 290402013850 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 290402013851 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 290402013852 dimer interface [polypeptide binding]; other site 290402013853 substrate binding site [chemical binding]; other site 290402013854 ATP binding site [chemical binding]; other site 290402013855 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 290402013856 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 290402013857 4Fe-4S binding domain; Region: Fer4_5; pfam12801 290402013858 4Fe-4S binding domain; Region: Fer4_5; pfam12801 290402013859 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290402013860 FMN-binding domain; Region: FMN_bind; cl01081 290402013861 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 290402013862 ApbE family; Region: ApbE; pfam02424 290402013863 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402013864 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 290402013865 dimerization interface [polypeptide binding]; other site 290402013866 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 290402013867 dimer interface [polypeptide binding]; other site 290402013868 phosphorylation site [posttranslational modification] 290402013869 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402013870 ATP binding site [chemical binding]; other site 290402013871 Mg2+ binding site [ion binding]; other site 290402013872 G-X-G motif; other site 290402013873 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402013874 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402013875 active site 290402013876 phosphorylation site [posttranslational modification] 290402013877 intermolecular recognition site; other site 290402013878 dimerization interface [polypeptide binding]; other site 290402013879 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 290402013880 DNA binding site [nucleotide binding] 290402013881 Uncharacterized conserved protein [Function unknown]; Region: COG1359 290402013882 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 290402013883 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 290402013884 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 290402013885 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 290402013886 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 290402013887 putative L-serine binding site [chemical binding]; other site 290402013888 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 290402013889 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290402013890 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402013891 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290402013892 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 290402013893 ABC-ATPase subunit interface; other site 290402013894 dimer interface [polypeptide binding]; other site 290402013895 putative PBP binding regions; other site 290402013896 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 290402013897 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 290402013898 Walker A/P-loop; other site 290402013899 ATP binding site [chemical binding]; other site 290402013900 Q-loop/lid; other site 290402013901 ABC transporter signature motif; other site 290402013902 Walker B; other site 290402013903 D-loop; other site 290402013904 H-loop/switch region; other site 290402013905 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 290402013906 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 290402013907 intersubunit interface [polypeptide binding]; other site 290402013908 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402013909 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 290402013910 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290402013911 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 290402013912 Predicted dehydrogenase [General function prediction only]; Region: COG0579 290402013913 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290402013914 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 290402013915 glycerol kinase; Provisional; Region: glpK; PRK00047 290402013916 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 290402013917 N- and C-terminal domain interface [polypeptide binding]; other site 290402013918 active site 290402013919 MgATP binding site [chemical binding]; other site 290402013920 catalytic site [active] 290402013921 metal binding site [ion binding]; metal-binding site 290402013922 glycerol binding site [chemical binding]; other site 290402013923 homotetramer interface [polypeptide binding]; other site 290402013924 homodimer interface [polypeptide binding]; other site 290402013925 FBP binding site [chemical binding]; other site 290402013926 protein IIAGlc interface [polypeptide binding]; other site 290402013927 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 290402013928 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 290402013929 amphipathic channel; other site 290402013930 Asn-Pro-Ala signature motifs; other site 290402013931 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 290402013932 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 290402013933 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 290402013934 active site 290402013935 Predicted membrane protein [Function unknown]; Region: COG2323 290402013936 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 290402013937 argininosuccinate synthase; Provisional; Region: PRK13820 290402013938 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 290402013939 ANP binding site [chemical binding]; other site 290402013940 Substrate Binding Site II [chemical binding]; other site 290402013941 Substrate Binding Site I [chemical binding]; other site 290402013942 argininosuccinate lyase; Provisional; Region: PRK00855 290402013943 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 290402013944 active sites [active] 290402013945 tetramer interface [polypeptide binding]; other site 290402013946 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 290402013947 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 290402013948 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 290402013949 heterotetramer interface [polypeptide binding]; other site 290402013950 active site pocket [active] 290402013951 cleavage site 290402013952 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 290402013953 feedback inhibition sensing region; other site 290402013954 homohexameric interface [polypeptide binding]; other site 290402013955 nucleotide binding site [chemical binding]; other site 290402013956 N-acetyl-L-glutamate binding site [chemical binding]; other site 290402013957 acetylornithine aminotransferase; Provisional; Region: PRK02627 290402013958 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 290402013959 inhibitor-cofactor binding pocket; inhibition site 290402013960 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402013961 catalytic residue [active] 290402013962 ornithine carbamoyltransferase; Provisional; Region: PRK00779 290402013963 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 290402013964 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 290402013965 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 290402013966 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 290402013967 GIY-YIG motif/motif A; other site 290402013968 active site 290402013969 catalytic site [active] 290402013970 putative DNA binding site [nucleotide binding]; other site 290402013971 metal binding site [ion binding]; metal-binding site 290402013972 UvrB/uvrC motif; Region: UVR; pfam02151 290402013973 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 290402013974 putative FMN binding site [chemical binding]; other site 290402013975 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402013976 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402013977 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 290402013978 beta-galactosidase; Region: BGL; TIGR03356 290402013979 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402013980 DNA-binding site [nucleotide binding]; DNA binding site 290402013981 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290402013982 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 290402013983 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 290402013984 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402013985 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 290402013986 putative substrate translocation pore; other site 290402013987 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 290402013988 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290402013989 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402013990 Helix-turn-helix domain; Region: HTH_18; pfam12833 290402013991 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402013992 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 290402013993 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 290402013994 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402013995 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402013996 active site turn [active] 290402013997 phosphorylation site [posttranslational modification] 290402013998 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 290402013999 HPr interaction site; other site 290402014000 glycerol kinase (GK) interaction site [polypeptide binding]; other site 290402014001 active site 290402014002 phosphorylation site [posttranslational modification] 290402014003 CAT RNA binding domain; Region: CAT_RBD; smart01061 290402014004 transcriptional antiterminator BglG; Provisional; Region: PRK09772 290402014005 PRD domain; Region: PRD; pfam00874 290402014006 PRD domain; Region: PRD; pfam00874 290402014007 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 290402014008 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 290402014009 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290402014010 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290402014011 nucleotide binding site [chemical binding]; other site 290402014012 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 290402014013 methionine cluster; other site 290402014014 active site 290402014015 phosphorylation site [posttranslational modification] 290402014016 metal binding site [ion binding]; metal-binding site 290402014017 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 290402014018 active site 290402014019 P-loop; other site 290402014020 phosphorylation site [posttranslational modification] 290402014021 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 290402014022 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 290402014023 Walker A motif; other site 290402014024 ATP binding site [chemical binding]; other site 290402014025 Walker B motif; other site 290402014026 arginine finger; other site 290402014027 Transcriptional antiterminator [Transcription]; Region: COG3933 290402014028 PRD domain; Region: PRD; pfam00874 290402014029 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290402014030 active pocket/dimerization site; other site 290402014031 active site 290402014032 phosphorylation site [posttranslational modification] 290402014033 PRD domain; Region: PRD; pfam00874 290402014034 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 290402014035 putative active site [active] 290402014036 putative metal binding residues [ion binding]; other site 290402014037 putative triphosphate binding site [ion binding]; other site 290402014038 signature motif; other site 290402014039 dimer interface [polypeptide binding]; other site 290402014040 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 290402014041 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290402014042 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290402014043 active site 290402014044 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 290402014045 Coenzyme A transferase; Region: CoA_trans; smart00882 290402014046 Coenzyme A transferase; Region: CoA_trans; cl17247 290402014047 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 290402014048 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 290402014049 substrate binding site [chemical binding]; other site 290402014050 oxyanion hole (OAH) forming residues; other site 290402014051 trimer interface [polypeptide binding]; other site 290402014052 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 290402014053 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402014054 putative substrate translocation pore; other site 290402014055 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402014056 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 290402014057 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 290402014058 Metal-binding active site; metal-binding site 290402014059 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290402014060 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290402014061 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290402014062 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 290402014063 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290402014064 PYR/PP interface [polypeptide binding]; other site 290402014065 dimer interface [polypeptide binding]; other site 290402014066 TPP binding site [chemical binding]; other site 290402014067 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290402014068 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 290402014069 TPP-binding site; other site 290402014070 KduI/IolB family; Region: KduI; pfam04962 290402014071 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290402014072 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 290402014073 substrate binding site [chemical binding]; other site 290402014074 ATP binding site [chemical binding]; other site 290402014075 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 290402014076 intersubunit interface [polypeptide binding]; other site 290402014077 active site 290402014078 zinc binding site [ion binding]; other site 290402014079 Na+ binding site [ion binding]; other site 290402014080 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 290402014081 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 290402014082 putative active site [active] 290402014083 metal binding site [ion binding]; metal-binding site 290402014084 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 290402014085 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 290402014086 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290402014087 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 290402014088 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290402014089 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 290402014090 motif II; other site 290402014091 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 290402014092 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290402014093 Walker A motif; other site 290402014094 ATP binding site [chemical binding]; other site 290402014095 Walker B motif; other site 290402014096 arginine finger; other site 290402014097 Transcriptional antiterminator [Transcription]; Region: COG3933 290402014098 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 290402014099 active pocket/dimerization site; other site 290402014100 active site 290402014101 phosphorylation site [posttranslational modification] 290402014102 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cd00133 290402014103 active site 290402014104 P-loop; other site 290402014105 phosphorylation site [posttranslational modification] 290402014106 PRD domain; Region: PRD; pfam00874 290402014107 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 290402014108 A subgroup of the 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_1; cd05710 290402014109 putative active site [active] 290402014110 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 290402014111 dimer interface [polypeptide binding]; other site 290402014112 active site 290402014113 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 290402014114 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 290402014115 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 290402014116 active site 290402014117 phosphorylation site [posttranslational modification] 290402014118 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 290402014119 active pocket/dimerization site; other site 290402014120 active site 290402014121 phosphorylation site [posttranslational modification] 290402014122 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290402014123 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402014124 DNA-binding site [nucleotide binding]; DNA binding site 290402014125 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 290402014126 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 290402014127 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 290402014128 active site 290402014129 trimer interface [polypeptide binding]; other site 290402014130 allosteric site; other site 290402014131 active site lid [active] 290402014132 hexamer (dimer of trimers) interface [polypeptide binding]; other site 290402014133 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290402014134 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402014135 DNA-binding site [nucleotide binding]; DNA binding site 290402014136 UTRA domain; Region: UTRA; pfam07702 290402014137 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 290402014138 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 290402014139 active site 290402014140 dimer interface [polypeptide binding]; other site 290402014141 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290402014142 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290402014143 nucleotide binding site [chemical binding]; other site 290402014144 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 290402014145 beta-galactosidase; Region: BGL; TIGR03356 290402014146 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290402014147 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290402014148 prephenate dehydrogenase; Validated; Region: PRK08507 290402014149 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 290402014150 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 290402014151 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 290402014152 Dehydroquinase class II; Region: DHquinase_II; pfam01220 290402014153 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 290402014154 trimer interface [polypeptide binding]; other site 290402014155 active site 290402014156 dimer interface [polypeptide binding]; other site 290402014157 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 290402014158 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 290402014159 ADP binding site [chemical binding]; other site 290402014160 magnesium binding site [ion binding]; other site 290402014161 putative shikimate binding site; other site 290402014162 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 290402014163 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 290402014164 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 290402014165 shikimate binding site; other site 290402014166 NAD(P) binding site [chemical binding]; other site 290402014167 monofunctional chorismate mutase, gram positive-type, clade 2; Region: CM_mono_grmpos; TIGR01805 290402014168 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 290402014169 Prephenate dehydratase; Region: PDT; pfam00800 290402014170 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 290402014171 putative L-Phe binding site [chemical binding]; other site 290402014172 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 290402014173 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 290402014174 Tetramer interface [polypeptide binding]; other site 290402014175 active site 290402014176 FMN-binding site [chemical binding]; other site 290402014177 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 290402014178 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 290402014179 hinge; other site 290402014180 active site 290402014181 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 290402014182 active site 290402014183 dimer interface [polypeptide binding]; other site 290402014184 metal binding site [ion binding]; metal-binding site 290402014185 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 290402014186 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 290402014187 putative accessory gene regulator protein; Provisional; Region: PRK01100 290402014188 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 290402014189 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 290402014190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402014191 active site 290402014192 phosphorylation site [posttranslational modification] 290402014193 intermolecular recognition site; other site 290402014194 dimerization interface [polypeptide binding]; other site 290402014195 LytTr DNA-binding domain; Region: LytTR; pfam04397 290402014196 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402014197 Walker A/P-loop; other site 290402014198 ATP binding site [chemical binding]; other site 290402014199 ABC transporter; Region: ABC_tran; pfam00005 290402014200 Q-loop/lid; other site 290402014201 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402014202 ABC transporter signature motif; other site 290402014203 ABC transporter signature motif; other site 290402014204 Walker B; other site 290402014205 Walker B; other site 290402014206 D-loop; other site 290402014207 D-loop; other site 290402014208 H-loop/switch region; other site 290402014209 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 290402014210 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290402014211 Walker A/P-loop; other site 290402014212 ATP binding site [chemical binding]; other site 290402014213 Q-loop/lid; other site 290402014214 ABC transporter signature motif; other site 290402014215 Walker B; other site 290402014216 D-loop; other site 290402014217 H-loop/switch region; other site 290402014218 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402014219 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402014220 Domain of unknown function (DUF4135); Region: DUF4135; pfam13575 290402014221 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402014222 galactoside permease; Reviewed; Region: lacY; PRK09528 290402014223 putative substrate translocation pore; other site 290402014224 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 290402014225 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 290402014226 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 290402014227 putative active site [active] 290402014228 catalytic site [active] 290402014229 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 290402014230 putative active site [active] 290402014231 catalytic site [active] 290402014232 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 290402014233 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 290402014234 HIGH motif; other site 290402014235 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 290402014236 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290402014237 active site 290402014238 KMSKS motif; other site 290402014239 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 290402014240 tRNA binding surface [nucleotide binding]; other site 290402014241 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402014242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402014243 active site 290402014244 phosphorylation site [posttranslational modification] 290402014245 intermolecular recognition site; other site 290402014246 dimerization interface [polypeptide binding]; other site 290402014247 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 290402014248 DNA binding site [nucleotide binding] 290402014249 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402014250 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 290402014251 dimerization interface [polypeptide binding]; other site 290402014252 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 290402014253 dimer interface [polypeptide binding]; other site 290402014254 phosphorylation site [posttranslational modification] 290402014255 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402014256 ATP binding site [chemical binding]; other site 290402014257 Mg2+ binding site [ion binding]; other site 290402014258 G-X-G motif; other site 290402014259 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 290402014260 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_1; cd12161 290402014261 putative ligand binding site [chemical binding]; other site 290402014262 putative NAD binding site [chemical binding]; other site 290402014263 catalytic site [active] 290402014264 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 290402014265 trimer interface [polypeptide binding]; other site 290402014266 active site 290402014267 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 290402014268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 290402014269 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 290402014270 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 290402014271 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 290402014272 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290402014273 Walker A motif; other site 290402014274 ATP binding site [chemical binding]; other site 290402014275 Walker B motif; other site 290402014276 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 290402014277 synthetase active site [active] 290402014278 NTP binding site [chemical binding]; other site 290402014279 metal binding site [ion binding]; metal-binding site 290402014280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 290402014281 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 290402014282 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402014283 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402014284 dimer interface [polypeptide binding]; other site 290402014285 putative CheW interface [polypeptide binding]; other site 290402014286 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 290402014287 active site 290402014288 catalytic residues [active] 290402014289 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain; Region: MPP_DR1119; cd07393 290402014290 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290402014291 putative active site [active] 290402014292 putative metal binding site [ion binding]; other site 290402014293 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 290402014294 butyrate kinase; Provisional; Region: PRK03011 290402014295 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 290402014296 Coat F domain; Region: Coat_F; pfam07875 290402014297 Coat F domain; Region: Coat_F; pfam07875 290402014298 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 290402014299 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 290402014300 active site 290402014301 HIGH motif; other site 290402014302 dimer interface [polypeptide binding]; other site 290402014303 KMSKS motif; other site 290402014304 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 290402014305 RNA binding surface [nucleotide binding]; other site 290402014306 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 290402014307 Divergent AAA domain; Region: AAA_4; pfam04326 290402014308 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 290402014309 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290402014310 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402014311 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402014312 metal binding site [ion binding]; metal-binding site 290402014313 active site 290402014314 I-site; other site 290402014315 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 290402014316 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 290402014317 active site 290402014318 tetramer interface; other site 290402014319 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290402014320 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290402014321 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290402014322 Bacterial sugar transferase; Region: Bac_transf; pfam02397 290402014323 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 290402014324 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290402014325 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 290402014326 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014327 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014328 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014329 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402014330 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 290402014331 dimerization interface [polypeptide binding]; other site 290402014332 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 290402014333 dimer interface [polypeptide binding]; other site 290402014334 phosphorylation site [posttranslational modification] 290402014335 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402014336 ATP binding site [chemical binding]; other site 290402014337 Mg2+ binding site [ion binding]; other site 290402014338 G-X-G motif; other site 290402014339 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402014340 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402014341 active site 290402014342 phosphorylation site [posttranslational modification] 290402014343 intermolecular recognition site; other site 290402014344 dimerization interface [polypeptide binding]; other site 290402014345 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 290402014346 DNA binding site [nucleotide binding] 290402014347 This family is most closely related to the GT1 family of glycosyltransferases. AmsK is involved in the biosynthesis of amylovoran, which functions as a virulence factor. It functions as a glycosyl transferase which transfers galactose from UDP-galactose...; Region: GT1_AmsK_like; cd04946 290402014348 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290402014349 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 290402014350 active site 290402014351 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 290402014352 homodimer interface [polypeptide binding]; other site 290402014353 O-Antigen ligase; Region: Wzy_C; pfam04932 290402014354 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 290402014355 TrkA-N domain; Region: TrkA_N; pfam02254 290402014356 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 290402014357 NAD(P) binding site [chemical binding]; other site 290402014358 homodimer interface [polypeptide binding]; other site 290402014359 substrate binding site [chemical binding]; other site 290402014360 active site 290402014361 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 290402014362 active site 290402014363 LicD family; Region: LicD; pfam04991 290402014364 putative glycosyl transferase; Provisional; Region: PRK10073 290402014365 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 290402014366 active site 290402014367 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014368 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 290402014369 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 290402014370 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 290402014371 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 290402014372 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 290402014373 active site 290402014374 P-loop; other site 290402014375 phosphorylation site [posttranslational modification] 290402014376 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 290402014377 methionine cluster; other site 290402014378 active site 290402014379 phosphorylation site [posttranslational modification] 290402014380 metal binding site [ion binding]; metal-binding site 290402014381 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 290402014382 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 290402014383 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 290402014384 active site 290402014385 P-loop; other site 290402014386 phosphorylation site [posttranslational modification] 290402014387 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 290402014388 methionine cluster; other site 290402014389 active site 290402014390 phosphorylation site [posttranslational modification] 290402014391 metal binding site [ion binding]; metal-binding site 290402014392 Adenosine deaminase z-alpha domain; Region: z-alpha; cl02659 290402014393 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 290402014394 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 290402014395 Walker A motif; other site 290402014396 ATP binding site [chemical binding]; other site 290402014397 Walker B motif; other site 290402014398 arginine finger; other site 290402014399 Transcriptional antiterminator [Transcription]; Region: COG3933 290402014400 PRD domain; Region: PRD; pfam00874 290402014401 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290402014402 active pocket/dimerization site; other site 290402014403 active site 290402014404 phosphorylation site [posttranslational modification] 290402014405 PRD domain; Region: PRD; pfam00874 290402014406 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402014407 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402014408 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 290402014409 putative active site [active] 290402014410 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 290402014411 beta-galactosidase; Region: BGL; TIGR03356 290402014412 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 290402014413 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 290402014414 TPP-binding site [chemical binding]; other site 290402014415 dimer interface [polypeptide binding]; other site 290402014416 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 290402014417 PYR/PP interface [polypeptide binding]; other site 290402014418 dimer interface [polypeptide binding]; other site 290402014419 TPP binding site [chemical binding]; other site 290402014420 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290402014421 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 290402014422 active site 290402014423 intersubunit interactions; other site 290402014424 catalytic residue [active] 290402014425 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 290402014426 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402014427 tetramer interface [polypeptide binding]; other site 290402014428 active site 290402014429 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 290402014430 active site 290402014431 dimer interface [polypeptide binding]; other site 290402014432 magnesium binding site [ion binding]; other site 290402014433 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 290402014434 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290402014435 substrate binding site [chemical binding]; other site 290402014436 ATP binding site [chemical binding]; other site 290402014437 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 290402014438 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402014439 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402014440 DNA binding site [nucleotide binding] 290402014441 domain linker motif; other site 290402014442 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 290402014443 putative dimerization interface [polypeptide binding]; other site 290402014444 putative ligand binding site [chemical binding]; other site 290402014445 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402014446 D-galactonate transporter; Region: 2A0114; TIGR00893 290402014447 putative substrate translocation pore; other site 290402014448 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 290402014449 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 290402014450 active site 290402014451 motif I; other site 290402014452 motif II; other site 290402014453 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290402014454 alpha-glucosidase; Provisional; Region: PRK10426 290402014455 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 290402014456 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 290402014457 putative active site [active] 290402014458 putative catalytic site [active] 290402014459 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290402014460 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 290402014461 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 290402014462 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 290402014463 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 290402014464 putative active site [active] 290402014465 putative catalytic site [active] 290402014466 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 290402014467 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402014468 Glucuronate isomerase; Region: UxaC; pfam02614 290402014469 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 290402014470 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 290402014471 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 290402014472 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 290402014473 mannonate dehydratase; Provisional; Region: PRK03906 290402014474 mannonate dehydratase; Region: uxuA; TIGR00695 290402014475 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290402014476 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402014477 DNA-binding site [nucleotide binding]; DNA binding site 290402014478 FCD domain; Region: FCD; pfam07729 290402014479 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290402014480 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402014481 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402014482 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 290402014483 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 290402014484 Predicted permeases [General function prediction only]; Region: COG0701 290402014485 TIGR03943 family protein; Region: TIGR03943 290402014486 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 290402014487 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 290402014488 NodB motif; other site 290402014489 active site 290402014490 catalytic site [active] 290402014491 Zn binding site [ion binding]; other site 290402014492 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014493 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014494 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014495 Lyc muramidase is an autolytic lysozyme (autolysin) from Clostridium acetobutylicum encoded by the lyc gene. Lyc has a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan...; Region: GH25_Lyc-like; cd06525 290402014496 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 290402014497 active site 290402014498 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014499 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014500 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 290402014501 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 290402014502 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290402014503 catalytic residue [active] 290402014504 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 290402014505 Sulfatase; Region: Sulfatase; cl17466 290402014506 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 290402014507 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 290402014508 metal binding site [ion binding]; metal-binding site 290402014509 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 290402014510 beta-galactosidase; Region: BGL; TIGR03356 290402014511 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 290402014512 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 290402014513 NAD binding site [chemical binding]; other site 290402014514 sugar binding site [chemical binding]; other site 290402014515 divalent metal binding site [ion binding]; other site 290402014516 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402014517 dimer interface [polypeptide binding]; other site 290402014518 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290402014519 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402014520 Walker A/P-loop; other site 290402014521 ATP binding site [chemical binding]; other site 290402014522 Q-loop/lid; other site 290402014523 ABC transporter signature motif; other site 290402014524 Walker B; other site 290402014525 D-loop; other site 290402014526 H-loop/switch region; other site 290402014527 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 290402014528 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 290402014529 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 290402014530 active site 290402014531 catalytic triad [active] 290402014532 oxyanion hole [active] 290402014533 Probable beta-xylosidase; Provisional; Region: PLN03080 290402014534 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 290402014535 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 290402014536 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 290402014537 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 290402014538 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402014539 active site 290402014540 phosphorylation site [posttranslational modification] 290402014541 intermolecular recognition site; other site 290402014542 dimerization interface [polypeptide binding]; other site 290402014543 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402014544 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 290402014545 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 290402014546 dimerization interface [polypeptide binding]; other site 290402014547 Histidine kinase; Region: His_kinase; pfam06580 290402014548 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402014549 ATP binding site [chemical binding]; other site 290402014550 Mg2+ binding site [ion binding]; other site 290402014551 G-X-G motif; other site 290402014552 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290402014553 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 290402014554 dimer interface [polypeptide binding]; other site 290402014555 conserved gate region; other site 290402014556 putative PBP binding loops; other site 290402014557 ABC-ATPase subunit interface; other site 290402014558 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 290402014559 dimer interface [polypeptide binding]; other site 290402014560 conserved gate region; other site 290402014561 putative PBP binding loops; other site 290402014562 ABC-ATPase subunit interface; other site 290402014563 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290402014564 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290402014565 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 290402014566 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 290402014567 hexamer (dimer of trimers) interface [polypeptide binding]; other site 290402014568 trimer interface [polypeptide binding]; other site 290402014569 substrate binding site [chemical binding]; other site 290402014570 Mn binding site [ion binding]; other site 290402014571 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402014572 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402014573 dimer interface [polypeptide binding]; other site 290402014574 putative CheW interface [polypeptide binding]; other site 290402014575 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 290402014576 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 290402014577 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 290402014578 active site 290402014579 P-loop; other site 290402014580 phosphorylation site [posttranslational modification] 290402014581 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 290402014582 methionine cluster; other site 290402014583 active site 290402014584 phosphorylation site [posttranslational modification] 290402014585 metal binding site [ion binding]; metal-binding site 290402014586 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 290402014587 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 290402014588 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290402014589 Walker A motif; other site 290402014590 ATP binding site [chemical binding]; other site 290402014591 Walker B motif; other site 290402014592 arginine finger; other site 290402014593 Transcriptional antiterminator [Transcription]; Region: COG3933 290402014594 PRD domain; Region: PRD; pfam00874 290402014595 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 290402014596 active pocket/dimerization site; other site 290402014597 active site 290402014598 phosphorylation site [posttranslational modification] 290402014599 PRD domain; Region: PRD; pfam00874 290402014600 Predicted membrane protein [Function unknown]; Region: COG1511 290402014601 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 290402014602 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 290402014603 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 290402014604 dimerization interface [polypeptide binding]; other site 290402014605 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 290402014606 PAS fold; Region: PAS_3; pfam08447 290402014607 putative active site [active] 290402014608 heme pocket [chemical binding]; other site 290402014609 PAS fold; Region: PAS; pfam00989 290402014610 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402014611 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402014612 metal binding site [ion binding]; metal-binding site 290402014613 active site 290402014614 I-site; other site 290402014615 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 290402014616 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 290402014617 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 290402014618 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402014619 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402014620 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 290402014621 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 290402014622 active site 290402014623 metal-binding site 290402014624 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 290402014625 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 290402014626 active site 290402014627 metal-binding site 290402014628 Choline Kinase (ChoK). The ChoK 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 kinase (AFK), and...; Region: ChoK; cd05151 290402014629 Phosphotransferase enzyme family; Region: APH; pfam01636 290402014630 active site 290402014631 ATP binding site [chemical binding]; other site 290402014632 substrate binding site [chemical binding]; other site 290402014633 dimer interface [polypeptide binding]; other site 290402014634 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014635 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014636 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014637 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 290402014638 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014639 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014640 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014641 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014642 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014643 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 290402014644 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 290402014645 active site 290402014646 metal binding site [ion binding]; metal-binding site 290402014647 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 290402014648 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014649 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014650 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 290402014651 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 290402014652 active site 290402014653 metal binding site [ion binding]; metal-binding site 290402014654 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 290402014655 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402014656 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402014657 metal binding site [ion binding]; metal-binding site 290402014658 active site 290402014659 I-site; other site 290402014660 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402014661 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402014662 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 290402014663 putative active site [active] 290402014664 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402014665 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402014666 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 290402014667 putative active site [active] 290402014668 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 290402014669 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 290402014670 NAD binding site [chemical binding]; other site 290402014671 sugar binding site [chemical binding]; other site 290402014672 divalent metal binding site [ion binding]; other site 290402014673 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402014674 dimer interface [polypeptide binding]; other site 290402014675 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 290402014676 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402014677 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402014678 active site turn [active] 290402014679 phosphorylation site [posttranslational modification] 290402014680 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 290402014681 HPr interaction site; other site 290402014682 glycerol kinase (GK) interaction site [polypeptide binding]; other site 290402014683 active site 290402014684 phosphorylation site [posttranslational modification] 290402014685 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 290402014686 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 290402014687 putative metal binding site; other site 290402014688 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 290402014689 binding surface 290402014690 TPR motif; other site 290402014691 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 290402014692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290402014693 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 290402014694 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 290402014695 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 290402014696 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 290402014697 trimer interface [polypeptide binding]; other site 290402014698 active site 290402014699 UDP-GlcNAc binding site [chemical binding]; other site 290402014700 lipid binding site [chemical binding]; lipid-binding site 290402014701 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 290402014702 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 290402014703 inhibitor-cofactor binding pocket; inhibition site 290402014704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402014705 catalytic residue [active] 290402014706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290402014707 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290402014708 NAD(P) binding site [chemical binding]; other site 290402014709 active site 290402014710 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 290402014711 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290402014712 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 290402014713 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290402014714 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 290402014715 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 290402014716 G1 box; other site 290402014717 putative GEF interaction site [polypeptide binding]; other site 290402014718 GTP/Mg2+ binding site [chemical binding]; other site 290402014719 Switch I region; other site 290402014720 G2 box; other site 290402014721 G3 box; other site 290402014722 Switch II region; other site 290402014723 G4 box; other site 290402014724 G5 box; other site 290402014725 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 290402014726 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014727 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014728 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014729 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014730 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014731 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 290402014732 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 290402014733 active site 290402014734 catalytic site [active] 290402014735 metal binding site [ion binding]; metal-binding site 290402014736 dimer interface [polypeptide binding]; other site 290402014737 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 290402014738 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 290402014739 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014740 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014741 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014742 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 290402014743 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 290402014744 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 290402014745 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 290402014746 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 290402014747 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 290402014748 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 290402014749 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014750 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014751 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014752 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 290402014753 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402014754 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402014755 dimer interface [polypeptide binding]; other site 290402014756 putative CheW interface [polypeptide binding]; other site 290402014757 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014758 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014759 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014760 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014761 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014762 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014763 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014764 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014765 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014766 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290402014767 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290402014768 Walker A/P-loop; other site 290402014769 ATP binding site [chemical binding]; other site 290402014770 Q-loop/lid; other site 290402014771 ABC transporter signature motif; other site 290402014772 Walker B; other site 290402014773 D-loop; other site 290402014774 H-loop/switch region; other site 290402014775 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290402014776 FtsX-like permease family; Region: FtsX; pfam02687 290402014777 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 290402014778 colanic acid exporter; Provisional; Region: PRK10459 290402014779 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290402014780 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 290402014781 putative ADP-binding pocket [chemical binding]; other site 290402014782 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 290402014783 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 290402014784 active site 290402014785 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290402014786 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 290402014787 putative ADP-binding pocket [chemical binding]; other site 290402014788 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 290402014789 trimer interface [polypeptide binding]; other site 290402014790 active site 290402014791 substrate binding site [chemical binding]; other site 290402014792 CoA binding site [chemical binding]; other site 290402014793 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290402014794 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 290402014795 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; pfam04101 290402014796 Oligosaccharide biosynthesis protein Alg14 like; Region: Alg14; pfam08660 290402014797 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 290402014798 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 290402014799 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 290402014800 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 290402014801 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 290402014802 Bacterial sugar transferase; Region: Bac_transf; pfam02397 290402014803 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 290402014804 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 290402014805 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 290402014806 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 290402014807 Chain length determinant protein; Region: Wzz; cl15801 290402014808 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 290402014809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 290402014810 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 290402014811 NlpC/P60 family; Region: NLPC_P60; pfam00877 290402014812 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014813 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014814 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 290402014815 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 290402014816 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 290402014817 Probable Catalytic site; other site 290402014818 metal-binding site 290402014819 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290402014820 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 290402014821 Probable Catalytic site; other site 290402014822 metal-binding site 290402014823 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290402014824 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 290402014825 S-adenosylmethionine binding site [chemical binding]; other site 290402014826 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 290402014827 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 290402014828 Walker A/P-loop; other site 290402014829 ATP binding site [chemical binding]; other site 290402014830 Q-loop/lid; other site 290402014831 ABC transporter signature motif; other site 290402014832 Walker B; other site 290402014833 D-loop; other site 290402014834 H-loop/switch region; other site 290402014835 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 290402014836 putative carbohydrate binding site [chemical binding]; other site 290402014837 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 290402014838 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 290402014839 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 290402014840 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 290402014841 NADP binding site [chemical binding]; other site 290402014842 active site 290402014843 putative substrate binding site [chemical binding]; other site 290402014844 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 290402014845 Probable Catalytic site; other site 290402014846 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 290402014847 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 290402014848 NAD binding site [chemical binding]; other site 290402014849 substrate binding site [chemical binding]; other site 290402014850 homodimer interface [polypeptide binding]; other site 290402014851 active site 290402014852 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 290402014853 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 290402014854 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 290402014855 substrate binding site; other site 290402014856 tetramer interface; other site 290402014857 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 290402014858 Bacterial sugar transferase; Region: Bac_transf; pfam02397 290402014859 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290402014860 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 290402014861 Probable Catalytic site; other site 290402014862 metal-binding site 290402014863 O-Antigen ligase; Region: Wzy_C; pfam04932 290402014864 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014865 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014866 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014867 SPRY domain; Region: SPRY; cl02614 290402014868 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014869 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014870 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014871 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014872 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014873 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014874 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014875 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014876 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014877 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014878 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402014879 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 290402014880 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014881 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014882 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 290402014883 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402014884 Uncharacterized conserved protein [Function unknown]; Region: COG1284 290402014885 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 290402014886 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 290402014887 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 290402014888 Cache domain; Region: Cache_1; pfam02743 290402014889 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 290402014890 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402014891 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402014892 dimer interface [polypeptide binding]; other site 290402014893 putative CheW interface [polypeptide binding]; other site 290402014894 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 290402014895 Putative glucoamylase; Region: Glycoamylase; pfam10091 290402014896 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 290402014897 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 290402014898 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 290402014899 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 290402014900 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 290402014901 active site 290402014902 metal binding site [ion binding]; metal-binding site 290402014903 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 290402014904 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 290402014905 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 290402014906 dimer interface [polypeptide binding]; other site 290402014907 active site 290402014908 catalytic residue [active] 290402014909 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 290402014910 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 290402014911 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 290402014912 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290402014913 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290402014914 Walker A/P-loop; other site 290402014915 ATP binding site [chemical binding]; other site 290402014916 Q-loop/lid; other site 290402014917 ABC transporter signature motif; other site 290402014918 Walker B; other site 290402014919 D-loop; other site 290402014920 H-loop/switch region; other site 290402014921 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 290402014922 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 290402014923 dimer interface [polypeptide binding]; other site 290402014924 conserved gate region; other site 290402014925 putative PBP binding loops; other site 290402014926 ABC-ATPase subunit interface; other site 290402014927 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 290402014928 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290402014929 substrate binding pocket [chemical binding]; other site 290402014930 membrane-bound complex binding site; other site 290402014931 hinge residues; other site 290402014932 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 290402014933 Part of AAA domain; Region: AAA_19; pfam13245 290402014934 FtsH Extracellular; Region: FtsH_ext; pfam06480 290402014935 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 290402014936 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 290402014937 Walker A motif; other site 290402014938 ATP binding site [chemical binding]; other site 290402014939 Walker B motif; other site 290402014940 arginine finger; other site 290402014941 Peptidase family M41; Region: Peptidase_M41; pfam01434 290402014942 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 290402014943 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 290402014944 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 290402014945 Catalytic site [active] 290402014946 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 290402014947 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 290402014948 Catalytic site [active] 290402014949 diaminopimelate decarboxylase; Region: lysA; TIGR01048 290402014950 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 290402014951 active site 290402014952 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290402014953 substrate binding site [chemical binding]; other site 290402014954 catalytic residues [active] 290402014955 dimer interface [polypeptide binding]; other site 290402014956 Class I aldolases; Region: Aldolase_Class_I; cl17187 290402014957 catalytic residue [active] 290402014958 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 290402014959 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 290402014960 dimerization interface [polypeptide binding]; other site 290402014961 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402014962 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402014963 dimer interface [polypeptide binding]; other site 290402014964 putative CheW interface [polypeptide binding]; other site 290402014965 Homeodomain-like domain; Region: HTH_23; pfam13384 290402014966 Winged helix-turn helix; Region: HTH_29; pfam13551 290402014967 Homeodomain-like domain; Region: HTH_32; pfam13565 290402014968 Winged helix-turn helix; Region: HTH_33; pfam13592 290402014969 DDE superfamily endonuclease; Region: DDE_3; pfam13358 290402014970 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 290402014971 aspartate aminotransferase; Provisional; Region: PRK06836 290402014972 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 290402014973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402014974 homodimer interface [polypeptide binding]; other site 290402014975 catalytic residue [active] 290402014976 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 290402014977 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 290402014978 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 290402014979 DHHA1 domain; Region: DHHA1; pfam02272 290402014980 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290402014981 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402014982 DNA-binding site [nucleotide binding]; DNA binding site 290402014983 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 290402014984 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 290402014985 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290402014986 substrate binding site [chemical binding]; other site 290402014987 ATP binding site [chemical binding]; other site 290402014988 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 290402014989 A subgroup of the 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_1; cd05710 290402014990 putative active site [active] 290402014991 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 290402014992 dimer interface [polypeptide binding]; other site 290402014993 active site 290402014994 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 290402014995 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290402014996 substrate binding pocket [chemical binding]; other site 290402014997 membrane-bound complex binding site; other site 290402014998 hinge residues; other site 290402014999 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 290402015000 metal-binding site [ion binding] 290402015001 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 290402015002 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 290402015003 metal-binding site [ion binding] 290402015004 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 290402015005 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 290402015006 metal-binding site [ion binding] 290402015007 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290402015008 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 290402015009 motif II; other site 290402015010 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 290402015011 putative homodimer interface [polypeptide binding]; other site 290402015012 putative homotetramer interface [polypeptide binding]; other site 290402015013 putative allosteric switch controlling residues; other site 290402015014 putative metal binding site [ion binding]; other site 290402015015 putative homodimer-homodimer interface [polypeptide binding]; other site 290402015016 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 290402015017 HPr interaction site; other site 290402015018 glycerol kinase (GK) interaction site [polypeptide binding]; other site 290402015019 active site 290402015020 phosphorylation site [posttranslational modification] 290402015021 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 290402015022 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 290402015023 NAD binding site [chemical binding]; other site 290402015024 sugar binding site [chemical binding]; other site 290402015025 divalent metal binding site [ion binding]; other site 290402015026 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402015027 dimer interface [polypeptide binding]; other site 290402015028 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402015029 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 290402015030 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 290402015031 active site turn [active] 290402015032 phosphorylation site [posttranslational modification] 290402015033 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402015034 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402015035 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 290402015036 putative active site [active] 290402015037 PAS fold; Region: PAS_4; pfam08448 290402015038 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 290402015039 putative active site [active] 290402015040 heme pocket [chemical binding]; other site 290402015041 PAS fold; Region: PAS_4; pfam08448 290402015042 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290402015043 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290402015044 metal binding site [ion binding]; metal-binding site 290402015045 active site 290402015046 I-site; other site 290402015047 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 290402015048 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402015049 Zn2+ binding site [ion binding]; other site 290402015050 Mg2+ binding site [ion binding]; other site 290402015051 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 290402015052 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 290402015053 metal binding site [ion binding]; metal-binding site 290402015054 dimer interface [polypeptide binding]; other site 290402015055 CAAX protease self-immunity; Region: Abi; pfam02517 290402015056 Predicted amidohydrolase [General function prediction only]; Region: COG0388 290402015057 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 290402015058 putative active site [active] 290402015059 catalytic triad [active] 290402015060 putative dimer interface [polypeptide binding]; other site 290402015061 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 290402015062 Response regulator receiver domain; Region: Response_reg; pfam00072 290402015063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402015064 active site 290402015065 phosphorylation site [posttranslational modification] 290402015066 intermolecular recognition site; other site 290402015067 dimerization interface [polypeptide binding]; other site 290402015068 Cache domain; Region: Cache_1; pfam02743 290402015069 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402015070 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 290402015071 dimer interface [polypeptide binding]; other site 290402015072 phosphorylation site [posttranslational modification] 290402015073 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402015074 ATP binding site [chemical binding]; other site 290402015075 Mg2+ binding site [ion binding]; other site 290402015076 G-X-G motif; other site 290402015077 Response regulator receiver domain; Region: Response_reg; pfam00072 290402015078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402015079 active site 290402015080 phosphorylation site [posttranslational modification] 290402015081 intermolecular recognition site; other site 290402015082 dimerization interface [polypeptide binding]; other site 290402015083 Hemerythrin; Region: Hemerythrin; cd12107 290402015084 Fe binding site [ion binding]; other site 290402015085 Hemerythrin; Region: Hemerythrin; cd12107 290402015086 Fe binding site [ion binding]; other site 290402015087 Response regulator receiver domain; Region: Response_reg; pfam00072 290402015088 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402015089 active site 290402015090 phosphorylation site [posttranslational modification] 290402015091 intermolecular recognition site; other site 290402015092 dimerization interface [polypeptide binding]; other site 290402015093 Response regulator receiver domain; Region: Response_reg; pfam00072 290402015094 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402015095 active site 290402015096 phosphorylation site [posttranslational modification] 290402015097 intermolecular recognition site; other site 290402015098 dimerization interface [polypeptide binding]; other site 290402015099 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 290402015100 dimer interface [polypeptide binding]; other site 290402015101 phosphorylation site [posttranslational modification] 290402015102 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402015103 ATP binding site [chemical binding]; other site 290402015104 Mg2+ binding site [ion binding]; other site 290402015105 G-X-G motif; other site 290402015106 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402015107 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 290402015108 dimerization interface [polypeptide binding]; other site 290402015109 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402015110 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402015111 dimer interface [polypeptide binding]; other site 290402015112 putative CheW interface [polypeptide binding]; other site 290402015113 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 290402015114 putative CheA interaction surface; other site 290402015115 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 290402015116 dimerization interface [polypeptide binding]; other site 290402015117 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402015118 dimer interface [polypeptide binding]; other site 290402015119 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 290402015120 putative CheW interface [polypeptide binding]; other site 290402015121 Response regulator receiver domain; Region: Response_reg; pfam00072 290402015122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402015123 active site 290402015124 phosphorylation site [posttranslational modification] 290402015125 intermolecular recognition site; other site 290402015126 dimerization interface [polypeptide binding]; other site 290402015127 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290402015128 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402015129 active site 290402015130 phosphorylation site [posttranslational modification] 290402015131 intermolecular recognition site; other site 290402015132 dimerization interface [polypeptide binding]; other site 290402015133 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 290402015134 DNA binding residues [nucleotide binding] 290402015135 dimerization interface [polypeptide binding]; other site 290402015136 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 290402015137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402015138 active site 290402015139 phosphorylation site [posttranslational modification] 290402015140 intermolecular recognition site; other site 290402015141 dimerization interface [polypeptide binding]; other site 290402015142 CheB methylesterase; Region: CheB_methylest; pfam01339 290402015143 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 290402015144 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 290402015145 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 290402015146 S-adenosylmethionine binding site [chemical binding]; other site 290402015147 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402015148 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 290402015149 dimerization interface [polypeptide binding]; other site 290402015150 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402015151 dimer interface [polypeptide binding]; other site 290402015152 putative CheW interface [polypeptide binding]; other site 290402015153 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 290402015154 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 290402015155 putative binding surface; other site 290402015156 active site 290402015157 P2 response regulator binding domain; Region: P2; pfam07194 290402015158 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 290402015159 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402015160 ATP binding site [chemical binding]; other site 290402015161 Mg2+ binding site [ion binding]; other site 290402015162 G-X-G motif; other site 290402015163 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 290402015164 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 290402015165 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 290402015166 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290402015167 ligand binding site [chemical binding]; other site 290402015168 flagellar motor protein MotA; Validated; Region: PRK08124 290402015169 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 290402015170 HAMP domain; Region: HAMP; pfam00672 290402015171 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402015172 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402015173 dimer interface [polypeptide binding]; other site 290402015174 putative CheW interface [polypeptide binding]; other site 290402015175 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 290402015176 beta-galactosidase; Region: BGL; TIGR03356 290402015177 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 290402015178 Ferritin-like domain; Region: Ferritin; pfam00210 290402015179 dimanganese center [ion binding]; other site 290402015180 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 290402015181 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 290402015182 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290402015183 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402015184 DNA-binding site [nucleotide binding]; DNA binding site 290402015185 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 290402015186 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 290402015187 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 290402015188 metal binding site [ion binding]; metal-binding site 290402015189 substrate binding pocket [chemical binding]; other site 290402015190 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 290402015191 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402015192 active site turn [active] 290402015193 phosphorylation site [posttranslational modification] 290402015194 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402015195 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 290402015196 HPr interaction site; other site 290402015197 glycerol kinase (GK) interaction site [polypeptide binding]; other site 290402015198 active site 290402015199 phosphorylation site [posttranslational modification] 290402015200 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 290402015201 Cupin domain; Region: Cupin_2; pfam07883 290402015202 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402015203 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402015204 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402015205 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290402015206 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290402015207 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290402015208 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 290402015209 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 290402015210 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290402015211 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290402015212 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290402015213 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 290402015214 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 290402015215 active site pocket [active] 290402015216 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 290402015217 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402015218 active site turn [active] 290402015219 phosphorylation site [posttranslational modification] 290402015220 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402015221 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 290402015222 HPr interaction site; other site 290402015223 glycerol kinase (GK) interaction site [polypeptide binding]; other site 290402015224 active site 290402015225 phosphorylation site [posttranslational modification] 290402015226 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 290402015227 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 290402015228 NAD binding site [chemical binding]; other site 290402015229 sugar binding site [chemical binding]; other site 290402015230 divalent metal binding site [ion binding]; other site 290402015231 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402015232 dimer interface [polypeptide binding]; other site 290402015233 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402015234 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402015235 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 290402015236 putative active site [active] 290402015237 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 290402015238 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402015239 ligand binding site [chemical binding]; other site 290402015240 calcium binding site [ion binding]; other site 290402015241 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 290402015242 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 290402015243 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 290402015244 S-adenosylmethionine binding site [chemical binding]; other site 290402015245 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 290402015246 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 290402015247 domain interfaces; other site 290402015248 active site 290402015249 6-phosphofructokinase; Provisional; Region: PRK03202 290402015250 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 290402015251 active site 290402015252 ADP/pyrophosphate binding site [chemical binding]; other site 290402015253 dimerization interface [polypeptide binding]; other site 290402015254 allosteric effector site; other site 290402015255 fructose-1,6-bisphosphate binding site; other site 290402015256 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 290402015257 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 290402015258 active site 290402015259 PHP Thumb interface [polypeptide binding]; other site 290402015260 metal binding site [ion binding]; metal-binding site 290402015261 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 290402015262 generic binding surface II; other site 290402015263 generic binding surface I; other site 290402015264 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 290402015265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 290402015266 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 290402015267 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 290402015268 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 290402015269 putative substrate binding pocket [chemical binding]; other site 290402015270 dimer interface [polypeptide binding]; other site 290402015271 phosphate binding site [ion binding]; other site 290402015272 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 290402015273 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 290402015274 FAD binding domain; Region: FAD_binding_4; pfam01565 290402015275 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 290402015276 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 290402015277 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 290402015278 GIY-YIG motif/motif A; other site 290402015279 active site 290402015280 catalytic site [active] 290402015281 putative DNA binding site [nucleotide binding]; other site 290402015282 metal binding site [ion binding]; metal-binding site 290402015283 UvrB/uvrC motif; Region: UVR; pfam02151 290402015284 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 290402015285 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290402015286 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 290402015287 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 290402015288 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 290402015289 phosphopeptide binding site; other site 290402015290 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 290402015291 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 290402015292 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 290402015293 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 290402015294 excinuclease ABC subunit B; Provisional; Region: PRK05298 290402015295 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 290402015296 ATP binding site [chemical binding]; other site 290402015297 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 290402015298 nucleotide binding region [chemical binding]; other site 290402015299 ATP-binding site [chemical binding]; other site 290402015300 Ultra-violet resistance protein B; Region: UvrB; pfam12344 290402015301 UvrB/uvrC motif; Region: UVR; pfam02151 290402015302 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 290402015303 protein binding site [polypeptide binding]; other site 290402015304 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 290402015305 C-terminal peptidase (prc); Region: prc; TIGR00225 290402015306 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 290402015307 protein binding site [polypeptide binding]; other site 290402015308 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 290402015309 Catalytic dyad [active] 290402015310 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 290402015311 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 290402015312 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 290402015313 ATP-binding cassette domain of the cell division transporter; Region: ABC_FtsE_transporter; cd03292 290402015314 Walker A/P-loop; other site 290402015315 ATP binding site [chemical binding]; other site 290402015316 Q-loop/lid; other site 290402015317 ABC transporter signature motif; other site 290402015318 Walker B; other site 290402015319 D-loop; other site 290402015320 H-loop/switch region; other site 290402015321 Uncharacterized conserved protein [Function unknown]; Region: COG1284 290402015322 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 290402015323 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 290402015324 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 290402015325 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 290402015326 PYR/PP interface [polypeptide binding]; other site 290402015327 dimer interface [polypeptide binding]; other site 290402015328 TPP binding site [chemical binding]; other site 290402015329 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290402015330 transketolase; Reviewed; Region: PRK05899 290402015331 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 290402015332 TPP-binding site [chemical binding]; other site 290402015333 dimer interface [polypeptide binding]; other site 290402015334 PemK-like protein; Region: PemK; pfam02452 290402015335 putative carbohydrate kinase; Provisional; Region: PRK10565 290402015336 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 290402015337 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 290402015338 putative substrate binding site [chemical binding]; other site 290402015339 putative ATP binding site [chemical binding]; other site 290402015340 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 290402015341 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 290402015342 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 290402015343 dimer interface [polypeptide binding]; other site 290402015344 ssDNA binding site [nucleotide binding]; other site 290402015345 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402015346 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 290402015347 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 290402015348 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 290402015349 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 290402015350 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 290402015351 putative trimer interface [polypeptide binding]; other site 290402015352 putative CoA binding site [chemical binding]; other site 290402015353 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 290402015354 putative trimer interface [polypeptide binding]; other site 290402015355 putative active site [active] 290402015356 putative substrate binding site [chemical binding]; other site 290402015357 putative CoA binding site [chemical binding]; other site 290402015358 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 290402015359 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 290402015360 inhibitor-cofactor binding pocket; inhibition site 290402015361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402015362 catalytic residue [active] 290402015363 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 290402015364 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 290402015365 ATP binding site [chemical binding]; other site 290402015366 putative Mg++ binding site [ion binding]; other site 290402015367 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 290402015368 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 290402015369 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 290402015370 Predicted methyltransferases [General function prediction only]; Region: COG0313 290402015371 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 290402015372 putative SAM binding site [chemical binding]; other site 290402015373 putative homodimer interface [polypeptide binding]; other site 290402015374 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 290402015375 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 290402015376 S-adenosylmethionine binding site [chemical binding]; other site 290402015377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 290402015378 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 290402015379 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 290402015380 NlpC/P60 family; Region: NLPC_P60; pfam00877 290402015381 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 290402015382 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 290402015383 motif II; other site 290402015384 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 290402015385 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 290402015386 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 290402015387 ligand binding site [chemical binding]; other site 290402015388 active site 290402015389 UGI interface [polypeptide binding]; other site 290402015390 catalytic site [active] 290402015391 Protein of unknown function (DUF3785); Region: DUF3785; pfam12653 290402015392 NAD-dependent deacetylase; Provisional; Region: PRK00481 290402015393 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 290402015394 competence damage-inducible protein A; Provisional; Region: PRK00549 290402015395 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 290402015396 putative MPT binding site; other site 290402015397 Competence-damaged protein; Region: CinA; pfam02464 290402015398 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290402015399 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290402015400 nucleotide binding site [chemical binding]; other site 290402015401 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 290402015402 elongation factor G; Reviewed; Region: PRK12740 290402015403 G1 box; other site 290402015404 putative GEF interaction site [polypeptide binding]; other site 290402015405 GTP/Mg2+ binding site [chemical binding]; other site 290402015406 Switch I region; other site 290402015407 G2 box; other site 290402015408 G3 box; other site 290402015409 Switch II region; other site 290402015410 G4 box; other site 290402015411 G5 box; other site 290402015412 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 290402015413 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 290402015414 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 290402015415 Predicted integral membrane protein [Function unknown]; Region: COG5652 290402015416 PEP synthetase regulatory protein; Provisional; Region: PRK05339 290402015417 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 290402015418 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 290402015419 NAD binding site [chemical binding]; other site 290402015420 dimer interface [polypeptide binding]; other site 290402015421 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402015422 substrate binding site [chemical binding]; other site 290402015423 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 290402015424 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 290402015425 ligand binding site; other site 290402015426 oligomer interface; other site 290402015427 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 290402015428 dimer interface [polypeptide binding]; other site 290402015429 N-terminal domain interface [polypeptide binding]; other site 290402015430 sulfate 1 binding site; other site 290402015431 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 290402015432 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 290402015433 ligand binding site; other site 290402015434 oligomer interface; other site 290402015435 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 290402015436 dimer interface [polypeptide binding]; other site 290402015437 N-terminal domain interface [polypeptide binding]; other site 290402015438 sulfate 1 binding site; other site 290402015439 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 290402015440 homodimer interface [polypeptide binding]; other site 290402015441 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 290402015442 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 290402015443 active site 290402015444 homodimer interface [polypeptide binding]; other site 290402015445 catalytic site [active] 290402015446 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 290402015447 homodimer interface [polypeptide binding]; other site 290402015448 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 290402015449 active site pocket [active] 290402015450 glycogen synthase; Provisional; Region: glgA; PRK00654 290402015451 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 290402015452 ADP-binding pocket [chemical binding]; other site 290402015453 homodimer interface [polypeptide binding]; other site 290402015454 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 290402015455 glycogen branching enzyme; Provisional; Region: PRK05402 290402015456 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 290402015457 active site 290402015458 catalytic site [active] 290402015459 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 290402015460 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 290402015461 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290402015462 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 290402015463 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 290402015464 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 290402015465 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 290402015466 active site 290402015467 phosphorylation site [posttranslational modification] 290402015468 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290402015469 active pocket/dimerization site; other site 290402015470 active site 290402015471 phosphorylation site [posttranslational modification] 290402015472 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 290402015473 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 290402015474 Walker A motif; other site 290402015475 ATP binding site [chemical binding]; other site 290402015476 Walker B motif; other site 290402015477 arginine finger; other site 290402015478 Transcriptional antiterminator [Transcription]; Region: COG3933 290402015479 PRD domain; Region: PRD; pfam00874 290402015480 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 290402015481 active pocket/dimerization site; other site 290402015482 active site 290402015483 phosphorylation site [posttranslational modification] 290402015484 PRD domain; Region: PRD; pfam00874 290402015485 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 290402015486 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 290402015487 putative ATP binding site [chemical binding]; other site 290402015488 putative substrate interface [chemical binding]; other site 290402015489 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 290402015490 Cache domain; Region: Cache_1; pfam02743 290402015491 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 290402015492 dimerization interface [polypeptide binding]; other site 290402015493 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402015494 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402015495 dimer interface [polypeptide binding]; other site 290402015496 putative CheW interface [polypeptide binding]; other site 290402015497 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 290402015498 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290402015499 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 290402015500 FMN binding site [chemical binding]; other site 290402015501 dimer interface [polypeptide binding]; other site 290402015502 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290402015503 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290402015504 Ion channel; Region: Ion_trans_2; pfam07885 290402015505 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 290402015506 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 290402015507 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290402015508 MarR family; Region: MarR_2; pfam12802 290402015509 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402015510 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402015511 putative substrate translocation pore; other site 290402015512 PAS domain S-box; Region: sensory_box; TIGR00229 290402015513 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 290402015514 putative active site [active] 290402015515 heme pocket [chemical binding]; other site 290402015516 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402015517 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 290402015518 phosphorylation site [posttranslational modification] 290402015519 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402015520 ATP binding site [chemical binding]; other site 290402015521 Mg2+ binding site [ion binding]; other site 290402015522 G-X-G motif; other site 290402015523 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 290402015524 Uncharacterized conserved protein [Function unknown]; Region: COG4198 290402015525 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 290402015526 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 290402015527 putative ligand binding site [chemical binding]; other site 290402015528 NAD binding site [chemical binding]; other site 290402015529 dimerization interface [polypeptide binding]; other site 290402015530 catalytic site [active] 290402015531 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 290402015532 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 290402015533 peptide binding site [polypeptide binding]; other site 290402015534 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 290402015535 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290402015536 Walker A/P-loop; other site 290402015537 ATP binding site [chemical binding]; other site 290402015538 Q-loop/lid; other site 290402015539 ABC transporter signature motif; other site 290402015540 Walker B; other site 290402015541 D-loop; other site 290402015542 H-loop/switch region; other site 290402015543 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290402015544 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 290402015545 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290402015546 Walker A/P-loop; other site 290402015547 ATP binding site [chemical binding]; other site 290402015548 Q-loop/lid; other site 290402015549 ABC transporter signature motif; other site 290402015550 Walker B; other site 290402015551 D-loop; other site 290402015552 H-loop/switch region; other site 290402015553 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 290402015554 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 290402015555 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 290402015556 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 290402015557 dimer interface [polypeptide binding]; other site 290402015558 conserved gate region; other site 290402015559 putative PBP binding loops; other site 290402015560 ABC-ATPase subunit interface; other site 290402015561 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290402015562 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 290402015563 dimer interface [polypeptide binding]; other site 290402015564 conserved gate region; other site 290402015565 putative PBP binding loops; other site 290402015566 ABC-ATPase subunit interface; other site 290402015567 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 290402015568 active site 290402015569 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 290402015570 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 290402015571 inhibitor-cofactor binding pocket; inhibition site 290402015572 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290402015573 catalytic residue [active] 290402015574 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 290402015575 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290402015576 DNA binding residues [nucleotide binding] 290402015577 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 290402015578 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290402015579 tetramerization interface [polypeptide binding]; other site 290402015580 NAD(P) binding site [chemical binding]; other site 290402015581 catalytic residues [active] 290402015582 D-glutamate deacylase; Validated; Region: PRK09061 290402015583 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 290402015584 active site 290402015585 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290402015586 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 290402015587 dimer interface [polypeptide binding]; other site 290402015588 conserved gate region; other site 290402015589 putative PBP binding loops; other site 290402015590 ABC-ATPase subunit interface; other site 290402015591 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 290402015592 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 290402015593 dimer interface [polypeptide binding]; other site 290402015594 conserved gate region; other site 290402015595 putative PBP binding loops; other site 290402015596 ABC-ATPase subunit interface; other site 290402015597 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 290402015598 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290402015599 Walker A/P-loop; other site 290402015600 ATP binding site [chemical binding]; other site 290402015601 Q-loop/lid; other site 290402015602 ABC transporter signature motif; other site 290402015603 Walker B; other site 290402015604 D-loop; other site 290402015605 H-loop/switch region; other site 290402015606 TOBE domain; Region: TOBE_2; pfam08402 290402015607 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 290402015608 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 290402015609 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 290402015610 Nitrogen regulatory protein P-II; Region: P-II; smart00938 290402015611 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290402015612 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 290402015613 DNA binding residues [nucleotide binding] 290402015614 dimerization interface [polypeptide binding]; other site 290402015615 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 290402015616 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 290402015617 active site 290402015618 Zn binding site [ion binding]; other site 290402015619 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 290402015620 Bacterial SH3 domain; Region: SH3_3; cl17532 290402015621 CHAP domain; Region: CHAP; pfam05257 290402015622 Surface antigen [General function prediction only]; Region: COG3942 290402015623 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 290402015624 recombination protein RecR; Reviewed; Region: recR; PRK00076 290402015625 RecR protein; Region: RecR; pfam02132 290402015626 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 290402015627 putative active site [active] 290402015628 putative metal-binding site [ion binding]; other site 290402015629 tetramer interface [polypeptide binding]; other site 290402015630 hypothetical protein; Validated; Region: PRK00153 290402015631 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 290402015632 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 290402015633 Walker A motif; other site 290402015634 ATP binding site [chemical binding]; other site 290402015635 Walker B motif; other site 290402015636 arginine finger; other site 290402015637 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 290402015638 thymidylate synthase; Reviewed; Region: thyA; PRK01827 290402015639 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 290402015640 dimerization interface [polypeptide binding]; other site 290402015641 active site 290402015642 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 290402015643 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 290402015644 folate binding site [chemical binding]; other site 290402015645 NADP+ binding site [chemical binding]; other site 290402015646 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 290402015647 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 290402015648 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 290402015649 diiron binding motif [ion binding]; other site 290402015650 camphor resistance protein CrcB; Provisional; Region: PRK14199 290402015651 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 290402015652 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 290402015653 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 290402015654 Response regulator receiver domain; Region: Response_reg; pfam00072 290402015655 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402015656 active site 290402015657 phosphorylation site [posttranslational modification] 290402015658 intermolecular recognition site; other site 290402015659 dimerization interface [polypeptide binding]; other site 290402015660 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 290402015661 pyruvate carboxylase; Reviewed; Region: PRK12999 290402015662 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290402015663 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290402015664 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 290402015665 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 290402015666 active site 290402015667 catalytic residues [active] 290402015668 metal binding site [ion binding]; metal-binding site 290402015669 homodimer binding site [polypeptide binding]; other site 290402015670 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 290402015671 carboxyltransferase (CT) interaction site; other site 290402015672 biotinylation site [posttranslational modification]; other site 290402015673 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 290402015674 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 290402015675 Response regulator receiver domain; Region: Response_reg; pfam00072 290402015676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402015677 active site 290402015678 phosphorylation site [posttranslational modification] 290402015679 intermolecular recognition site; other site 290402015680 dimerization interface [polypeptide binding]; other site 290402015681 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402015682 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402015683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402015684 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 290402015685 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 290402015686 Histidine kinase; Region: His_kinase; pfam06580 290402015687 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402015688 ATP binding site [chemical binding]; other site 290402015689 Mg2+ binding site [ion binding]; other site 290402015690 G-X-G motif; other site 290402015691 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290402015692 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290402015693 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290402015694 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290402015695 HAMP domain; Region: HAMP; pfam00672 290402015696 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402015697 dimer interface [polypeptide binding]; other site 290402015698 putative CheW interface [polypeptide binding]; other site 290402015699 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 290402015700 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290402015701 ligand binding site [chemical binding]; other site 290402015702 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402015703 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 290402015704 TM-ABC transporter signature motif; other site 290402015705 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290402015706 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290402015707 Walker A/P-loop; other site 290402015708 ATP binding site [chemical binding]; other site 290402015709 Q-loop/lid; other site 290402015710 ABC transporter signature motif; other site 290402015711 Walker B; other site 290402015712 D-loop; other site 290402015713 H-loop/switch region; other site 290402015714 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290402015715 Nitroreductase-like family 3. 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_3; cd02139 290402015716 putative FMN binding site [chemical binding]; other site 290402015717 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290402015718 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290402015719 Predicted transcriptional regulators [Transcription]; Region: COG1733 290402015720 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290402015721 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 290402015722 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 290402015723 inhibitor binding site; inhibition site 290402015724 active site 290402015725 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 290402015726 substrate binding site [chemical binding]; other site 290402015727 active site 290402015728 Probable beta-xylosidase; Provisional; Region: PLN03080 290402015729 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 290402015730 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 290402015731 Cupin domain; Region: Cupin_2; cl17218 290402015732 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290402015733 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290402015734 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402015735 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402015736 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 290402015737 putative active site [active] 290402015738 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402015739 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 290402015740 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402015741 active site turn [active] 290402015742 phosphorylation site [posttranslational modification] 290402015743 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 290402015744 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 290402015745 NAD binding site [chemical binding]; other site 290402015746 sugar binding site [chemical binding]; other site 290402015747 divalent metal binding site [ion binding]; other site 290402015748 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402015749 dimer interface [polypeptide binding]; other site 290402015750 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402015751 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290402015752 putative substrate translocation pore; other site 290402015753 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290402015754 MarR family; Region: MarR_2; pfam12802 290402015755 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 290402015756 HPr interaction site; other site 290402015757 glycerol kinase (GK) interaction site [polypeptide binding]; other site 290402015758 active site 290402015759 phosphorylation site [posttranslational modification] 290402015760 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 290402015761 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402015762 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402015763 active site turn [active] 290402015764 phosphorylation site [posttranslational modification] 290402015765 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 290402015766 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 290402015767 NAD binding site [chemical binding]; other site 290402015768 sugar binding site [chemical binding]; other site 290402015769 divalent metal binding site [ion binding]; other site 290402015770 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402015771 dimer interface [polypeptide binding]; other site 290402015772 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402015773 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402015774 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 290402015775 putative active site [active] 290402015776 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 290402015777 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 290402015778 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 290402015779 RNA polymerase factor sigma-70; Validated; Region: PRK08295 290402015780 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290402015781 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 290402015782 DNA binding residues [nucleotide binding] 290402015783 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 290402015784 Transposase domain (DUF772); Region: DUF772; pfam05598 290402015785 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402015786 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 290402015787 non-specific DNA binding site [nucleotide binding]; other site 290402015788 salt bridge; other site 290402015789 sequence-specific DNA binding site [nucleotide binding]; other site 290402015790 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290402015791 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 290402015792 non-specific DNA binding site [nucleotide binding]; other site 290402015793 salt bridge; other site 290402015794 sequence-specific DNA binding site [nucleotide binding]; other site 290402015795 D5 N terminal like; Region: D5_N; cl07360 290402015796 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 290402015797 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 290402015798 active site 290402015799 catalytic residues [active] 290402015800 DNA binding site [nucleotide binding] 290402015801 Int/Topo IB signature motif; other site 290402015802 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 290402015803 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 290402015804 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 290402015805 active site 290402015806 catalytic residues [active] 290402015807 DNA binding site [nucleotide binding] 290402015808 Int/Topo IB signature motif; other site 290402015809 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 290402015810 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 290402015811 S-adenosylmethionine binding site [chemical binding]; other site 290402015812 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290402015813 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290402015814 DNA-binding site [nucleotide binding]; DNA binding site 290402015815 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 290402015816 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 290402015817 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 290402015818 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 290402015819 nucleoside/Zn binding site; other site 290402015820 dimer interface [polypeptide binding]; other site 290402015821 catalytic motif [active] 290402015822 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290402015823 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 290402015824 putative substrate binding site [chemical binding]; other site 290402015825 putative ATP binding site [chemical binding]; other site 290402015826 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 290402015827 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 290402015828 substrate binding [chemical binding]; other site 290402015829 active site 290402015830 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 290402015831 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290402015832 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290402015833 DNA binding site [nucleotide binding] 290402015834 domain linker motif; other site 290402015835 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 290402015836 dimerization interface [polypeptide binding]; other site 290402015837 ligand binding site [chemical binding]; other site 290402015838 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 290402015839 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402015840 active site turn [active] 290402015841 phosphorylation site [posttranslational modification] 290402015842 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402015843 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 290402015844 Mg binding site [ion binding]; other site 290402015845 nucleotide binding site [chemical binding]; other site 290402015846 putative protofilament interface [polypeptide binding]; other site 290402015847 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 290402015848 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 290402015849 HPr interaction site; other site 290402015850 glycerol kinase (GK) interaction site [polypeptide binding]; other site 290402015851 active site 290402015852 phosphorylation site [posttranslational modification] 290402015853 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 290402015854 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 290402015855 NAD binding site [chemical binding]; other site 290402015856 sugar binding site [chemical binding]; other site 290402015857 divalent metal binding site [ion binding]; other site 290402015858 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402015859 dimer interface [polypeptide binding]; other site 290402015860 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 290402015861 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 290402015862 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 290402015863 active site turn [active] 290402015864 phosphorylation site [posttranslational modification] 290402015865 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290402015866 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290402015867 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 290402015868 putative active site [active] 290402015869 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 290402015870 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 290402015871 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 290402015872 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 290402015873 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290402015874 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 290402015875 dimerization interface [polypeptide binding]; other site 290402015876 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 290402015877 dimer interface [polypeptide binding]; other site 290402015878 phosphorylation site [posttranslational modification] 290402015879 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290402015880 ATP binding site [chemical binding]; other site 290402015881 Mg2+ binding site [ion binding]; other site 290402015882 G-X-G motif; other site 290402015883 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290402015884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290402015885 active site 290402015886 phosphorylation site [posttranslational modification] 290402015887 intermolecular recognition site; other site 290402015888 dimerization interface [polypeptide binding]; other site 290402015889 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 290402015890 DNA binding site [nucleotide binding] 290402015891 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 290402015892 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290402015893 Soluble P-type ATPase [General function prediction only]; Region: COG4087 290402015894 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 290402015895 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 290402015896 putative acyl-acceptor binding pocket; other site 290402015897 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 290402015898 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 290402015899 ATP binding site [chemical binding]; other site 290402015900 Mg++ binding site [ion binding]; other site 290402015901 motif III; other site 290402015902 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 290402015903 nucleotide binding region [chemical binding]; other site 290402015904 ATP-binding site [chemical binding]; other site 290402015905 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 290402015906 RNA binding site [nucleotide binding]; other site 290402015907 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 290402015908 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 290402015909 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 290402015910 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 290402015911 Walker A motif; other site 290402015912 ATP binding site [chemical binding]; other site 290402015913 Walker B motif; other site 290402015914 arginine finger; other site 290402015915 PRD domain; Region: PRD; pfam00874 290402015916 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290402015917 active pocket/dimerization site; other site 290402015918 active site 290402015919 phosphorylation site [posttranslational modification] 290402015920 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290402015921 Zn2+ binding site [ion binding]; other site 290402015922 Mg2+ binding site [ion binding]; other site 290402015923 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 290402015924 Nitrogen regulatory protein P-II; Region: P-II; smart00938 290402015925 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 290402015926 Phosphotransferase enzyme family; Region: APH; pfam01636 290402015927 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 290402015928 active site 290402015929 ATP binding site [chemical binding]; other site 290402015930 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 290402015931 putative transporter; Provisional; Region: PRK11660 290402015932 Sulfate transporter family; Region: Sulfate_transp; pfam00916 290402015933 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 290402015934 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 290402015935 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 290402015936 dimer interface [polypeptide binding]; other site 290402015937 active site 290402015938 catalytic residue [active] 290402015939 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290402015940 hypothetical protein; Provisional; Region: PRK10621 290402015941 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 290402015942 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 290402015943 predicted active site [active] 290402015944 catalytic triad [active] 290402015945 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 290402015946 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 290402015947 active site 290402015948 multimer interface [polypeptide binding]; other site 290402015949 Predicted DNA modification methylase [DNA replication, recombination, and repair]; Region: COG1041 290402015950 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 290402015951 S-adenosylmethionine binding site [chemical binding]; other site 290402015952 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 290402015953 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 290402015954 putative ligand binding site [chemical binding]; other site 290402015955 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290402015956 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 290402015957 TM-ABC transporter signature motif; other site 290402015958 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 290402015959 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 290402015960 TM-ABC transporter signature motif; other site 290402015961 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 290402015962 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 290402015963 Walker A/P-loop; other site 290402015964 ATP binding site [chemical binding]; other site 290402015965 Q-loop/lid; other site 290402015966 ABC transporter signature motif; other site 290402015967 Walker B; other site 290402015968 D-loop; other site 290402015969 H-loop/switch region; other site 290402015970 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 290402015971 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 290402015972 Walker A/P-loop; other site 290402015973 ATP binding site [chemical binding]; other site 290402015974 Q-loop/lid; other site 290402015975 ABC transporter signature motif; other site 290402015976 Walker B; other site 290402015977 D-loop; other site 290402015978 H-loop/switch region; other site 290402015979 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 290402015980 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 290402015981 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 290402015982 This putative domain contains a quite highly conserved sequence of CGGC in its central region; Region: CGGC; smart01078 290402015983 Rrf2 family protein; Region: rrf2_super; TIGR00738 290402015984 Transcriptional regulator; Region: Rrf2; pfam02082 290402015985 Transcriptional regulator; Region: Rrf2; cl17282 290402015986 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 290402015987 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 290402015988 ACS interaction site; other site 290402015989 CODH interaction site; other site 290402015990 metal cluster binding site [ion binding]; other site 290402015991 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 290402015992 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290402015993 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290402015994 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290402015995 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 290402015996 FAD binding site [chemical binding]; other site 290402015997 homotetramer interface [polypeptide binding]; other site 290402015998 substrate binding pocket [chemical binding]; other site 290402015999 catalytic base [active] 290402016000 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 290402016001 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 290402016002 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 290402016003 Rubredoxin; Region: Rubredoxin; pfam00301 290402016004 iron binding site [ion binding]; other site 290402016005 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 290402016006 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402016007 putative transporter; Provisional; Region: PRK10504 290402016008 putative substrate translocation pore; other site 290402016009 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 290402016010 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 290402016011 dimerization interface [polypeptide binding]; other site 290402016012 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402016013 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290402016014 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290402016015 dimer interface [polypeptide binding]; other site 290402016016 putative CheW interface [polypeptide binding]; other site 290402016017 hypothetical protein; Provisional; Region: PRK05590 290402016018 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 290402016019 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 290402016020 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 290402016021 hinge; other site 290402016022 active site 290402016023 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 290402016024 dUTPase; Region: dUTPase_2; pfam08761 290402016025 Protein of unknown function, DUF606; Region: DUF606; pfam04657 290402016026 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 290402016027 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 290402016028 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 290402016029 active site 290402016030 catalytic residues [active] 290402016031 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 290402016032 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 290402016033 DNA replication protein DnaC; Validated; Region: PRK06835 290402016034 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 290402016035 Walker A motif; other site 290402016036 ATP binding site [chemical binding]; other site 290402016037 flavoprotein, HI0933 family; Region: TIGR00275 290402016038 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290402016039 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 290402016040 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 290402016041 active site 290402016042 Thioesterase-like superfamily; Region: 4HBT_2; pfam13279 290402016043 active site 2 [active] 290402016044 active site 1 [active] 290402016045 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 290402016046 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 290402016047 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 290402016048 GDP-binding site [chemical binding]; other site 290402016049 ACT binding site; other site 290402016050 IMP binding site; other site 290402016051 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 290402016052 Malic enzyme, N-terminal domain; Region: malic; pfam00390 290402016053 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 290402016054 putative NAD(P) binding site [chemical binding]; other site 290402016055 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 290402016056 pyrroline-5-carboxylate reductase; Region: PLN02688 290402016057 replicative DNA helicase; Provisional; Region: PRK05595 290402016058 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 290402016059 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 290402016060 Walker A motif; other site 290402016061 ATP binding site [chemical binding]; other site 290402016062 Walker B motif; other site 290402016063 DNA binding loops [nucleotide binding] 290402016064 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 290402016065 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 290402016066 Walker A motif; other site 290402016067 ATP binding site [chemical binding]; other site 290402016068 Walker B motif; other site 290402016069 arginine finger; other site 290402016070 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 290402016071 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 290402016072 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 290402016073 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 290402016074 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 290402016075 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 290402016076 DHH family; Region: DHH; pfam01368 290402016077 DHHA1 domain; Region: DHHA1; pfam02272 290402016078 MazG-like family; Region: MazG-like; pfam12643 290402016079 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 290402016080 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 290402016081 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 290402016082 dimer interface [polypeptide binding]; other site 290402016083 ssDNA binding site [nucleotide binding]; other site 290402016084 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290402016085 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 290402016086 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 290402016087 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 290402016088 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290402016089 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 290402016090 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290402016091 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 290402016092 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 290402016093 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290402016094 catalytic residue [active] 290402016095 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 290402016096 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 290402016097 ParB-like nuclease domain; Region: ParBc; pfam02195 290402016098 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 290402016099 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 290402016100 P-loop; other site 290402016101 Magnesium ion binding site [ion binding]; other site 290402016102 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 290402016103 Magnesium ion binding site [ion binding]; other site 290402016104 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 290402016105 ParB-like nuclease domain; Region: ParB; smart00470 290402016106 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 290402016107 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 290402016108 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 290402016109 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 290402016110 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 290402016111 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 290402016112 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 290402016113 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 290402016114 trmE is a tRNA modification GTPase; Region: trmE; cd04164 290402016115 G1 box; other site 290402016116 GTP/Mg2+ binding site [chemical binding]; other site 290402016117 Switch I region; other site 290402016118 G2 box; other site 290402016119 Switch II region; other site 290402016120 G3 box; other site 290402016121 G4 box; other site 290402016122 G5 box; other site 290402016123 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 290402016124 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 290402016125 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 290402016126 G-X-X-G motif; other site 290402016127 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 290402016128 RxxxH motif; other site 290402016129 putative inner membrane protein translocase component YidC; Provisional; Region: PRK00145 290402016130 Haemolytic domain; Region: Haemolytic; pfam01809 290402016131 ribonuclease P; Reviewed; Region: rnpA; PRK00499 290402016132 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399