-- dump date 20140619_230123 -- class Genbank::misc_feature -- table misc_feature_note -- id note 985665000001 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985665000002 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 985665000003 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985665000004 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 985665000005 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 985665000006 homodimer interface [polypeptide binding]; other site 985665000007 substrate-cofactor binding pocket; other site 985665000008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665000009 catalytic residue [active] 985665000010 prephenate dehydratase; Provisional; Region: PRK11898 985665000011 Prephenate dehydratase; Region: PDT; pfam00800 985665000012 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 985665000013 putative L-Phe binding site [chemical binding]; other site 985665000014 homoserine kinase; Provisional; Region: PRK01212 985665000015 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 985665000016 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 985665000017 homoserine dehydrogenase; Provisional; Region: PRK06349 985665000018 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 985665000019 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 985665000020 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 985665000021 hypothetical protein; Provisional; Region: PRK04435 985665000022 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 985665000023 GTPase CgtA; Reviewed; Region: obgE; PRK12297 985665000024 GTP1/OBG; Region: GTP1_OBG; pfam01018 985665000025 Obg GTPase; Region: Obg; cd01898 985665000026 G1 box; other site 985665000027 GTP/Mg2+ binding site [chemical binding]; other site 985665000028 Switch I region; other site 985665000029 G2 box; other site 985665000030 G3 box; other site 985665000031 Switch II region; other site 985665000032 G4 box; other site 985665000033 G5 box; other site 985665000034 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 985665000035 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 985665000036 Protein of unknown function (DUF464); Region: DUF464; pfam04327 985665000037 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 985665000038 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 985665000039 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 985665000040 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 985665000041 homodimer interface [polypeptide binding]; other site 985665000042 oligonucleotide binding site [chemical binding]; other site 985665000043 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 985665000044 active site 985665000045 Peptidase family M50; Region: Peptidase_M50; pfam02163 985665000046 putative substrate binding region [chemical binding]; other site 985665000047 Peptidase family M23; Region: Peptidase_M23; pfam01551 985665000048 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 985665000049 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 985665000050 Switch I; other site 985665000051 Switch II; other site 985665000052 septum formation inhibitor; Reviewed; Region: minC; PRK00513 985665000053 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 985665000054 rod shape-determining protein MreD; Region: MreD; cl01087 985665000055 rod shape-determining protein MreC; Provisional; Region: PRK13922 985665000056 rod shape-determining protein MreC; Region: MreC; pfam04085 985665000057 rod shape-determining protein MreB; Provisional; Region: PRK13927 985665000058 MreB and similar proteins; Region: MreB_like; cd10225 985665000059 nucleotide binding site [chemical binding]; other site 985665000060 Mg binding site [ion binding]; other site 985665000061 putative protofilament interaction site [polypeptide binding]; other site 985665000062 RodZ interaction site [polypeptide binding]; other site 985665000063 hypothetical protein; Reviewed; Region: PRK00024 985665000064 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 985665000065 MPN+ (JAMM) motif; other site 985665000066 Zinc-binding site [ion binding]; other site 985665000067 Maf-like protein; Reviewed; Region: PRK00078 985665000068 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 985665000069 active site 985665000070 dimer interface [polypeptide binding]; other site 985665000071 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 985665000072 Sporulation related domain; Region: SPOR; pfam05036 985665000073 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 985665000074 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 985665000075 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985665000076 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985665000077 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 985665000078 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985665000079 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985665000080 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 985665000081 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 985665000082 active site 985665000083 HIGH motif; other site 985665000084 nucleotide binding site [chemical binding]; other site 985665000085 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 985665000086 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 985665000087 active site 985665000088 KMSKS motif; other site 985665000089 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 985665000090 tRNA binding surface [nucleotide binding]; other site 985665000091 anticodon binding site; other site 985665000092 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 985665000093 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 985665000094 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985665000095 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 985665000096 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 985665000097 active site 985665000098 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 985665000099 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 985665000100 inhibitor-cofactor binding pocket; inhibition site 985665000101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665000102 catalytic residue [active] 985665000103 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 985665000104 dimer interface [polypeptide binding]; other site 985665000105 active site 985665000106 Schiff base residues; other site 985665000107 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 985665000108 active site 985665000109 SAM binding site [chemical binding]; other site 985665000110 homodimer interface [polypeptide binding]; other site 985665000111 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 985665000112 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 985665000113 active site 985665000114 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 985665000115 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 985665000116 domain interfaces; other site 985665000117 active site 985665000118 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 985665000119 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 985665000120 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 985665000121 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 985665000122 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 985665000123 tRNA; other site 985665000124 putative tRNA binding site [nucleotide binding]; other site 985665000125 putative NADP binding site [chemical binding]; other site 985665000126 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 985665000127 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 985665000128 G1 box; other site 985665000129 GTP/Mg2+ binding site [chemical binding]; other site 985665000130 Switch I region; other site 985665000131 G2 box; other site 985665000132 G3 box; other site 985665000133 Switch II region; other site 985665000134 G4 box; other site 985665000135 G5 box; other site 985665000136 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 985665000137 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 985665000138 Walker A motif; other site 985665000139 ATP binding site [chemical binding]; other site 985665000140 Walker B motif; other site 985665000141 arginine finger; other site 985665000142 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 985665000143 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 985665000144 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 985665000145 Walker A motif; other site 985665000146 ATP binding site [chemical binding]; other site 985665000147 Walker B motif; other site 985665000148 arginine finger; other site 985665000149 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 985665000150 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 985665000151 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 985665000152 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 985665000153 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 985665000154 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 985665000155 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 985665000156 Walker A motif; other site 985665000157 ATP binding site [chemical binding]; other site 985665000158 Walker B motif; other site 985665000159 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 985665000160 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 985665000161 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 985665000162 oligomer interface [polypeptide binding]; other site 985665000163 active site residues [active] 985665000164 trigger factor; Provisional; Region: tig; PRK01490 985665000165 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 985665000166 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 985665000167 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 985665000168 active site 985665000169 putative catalytic site [active] 985665000170 DNA binding site [nucleotide binding] 985665000171 putative phosphate binding site [ion binding]; other site 985665000172 metal binding site A [ion binding]; metal-binding site 985665000173 AP binding site [nucleotide binding]; other site 985665000174 metal binding site B [ion binding]; metal-binding site 985665000175 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 985665000176 beta-galactosidase; Region: BGL; TIGR03356 985665000177 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665000178 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 985665000179 dimer interface [polypeptide binding]; other site 985665000180 conserved gate region; other site 985665000181 putative PBP binding loops; other site 985665000182 ABC-ATPase subunit interface; other site 985665000183 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 985665000184 dimer interface [polypeptide binding]; other site 985665000185 conserved gate region; other site 985665000186 putative PBP binding loops; other site 985665000187 ABC-ATPase subunit interface; other site 985665000188 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 985665000189 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665000190 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665000191 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665000192 DNA binding site [nucleotide binding] 985665000193 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 985665000194 dimerization interface [polypeptide binding]; other site 985665000195 ligand binding site [chemical binding]; other site 985665000196 glycerol kinase; Provisional; Region: glpK; PRK00047 985665000197 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 985665000198 N- and C-terminal domain interface [polypeptide binding]; other site 985665000199 active site 985665000200 MgATP binding site [chemical binding]; other site 985665000201 catalytic site [active] 985665000202 metal binding site [ion binding]; metal-binding site 985665000203 glycerol binding site [chemical binding]; other site 985665000204 homotetramer interface [polypeptide binding]; other site 985665000205 homodimer interface [polypeptide binding]; other site 985665000206 FBP binding site [chemical binding]; other site 985665000207 protein IIAGlc interface [polypeptide binding]; other site 985665000208 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 985665000209 amphipathic channel; other site 985665000210 Asn-Pro-Ala signature motifs; other site 985665000211 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 985665000212 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665000213 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 985665000214 active site turn [active] 985665000215 phosphorylation site [posttranslational modification] 985665000216 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665000217 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665000218 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665000219 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 985665000220 dimer interface [polypeptide binding]; other site 985665000221 ABC-ATPase subunit interface; other site 985665000222 putative PBP binding loops; other site 985665000223 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665000224 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 985665000225 dimer interface [polypeptide binding]; other site 985665000226 conserved gate region; other site 985665000227 putative PBP binding loops; other site 985665000228 ABC-ATPase subunit interface; other site 985665000229 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 985665000230 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 985665000231 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 985665000232 beta-galactosidase; Region: BGL; TIGR03356 985665000233 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665000234 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665000235 DNA binding site [nucleotide binding] 985665000236 domain linker motif; other site 985665000237 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 985665000238 CAT RNA binding domain; Region: CAT_RBD; smart01061 985665000239 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985665000240 PRD domain; Region: PRD; pfam00874 985665000241 PRD domain; Region: PRD; pfam00874 985665000242 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 985665000243 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 985665000244 active site turn [active] 985665000245 phosphorylation site [posttranslational modification] 985665000246 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665000247 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985665000248 HPr interaction site; other site 985665000249 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665000250 active site 985665000251 phosphorylation site [posttranslational modification] 985665000252 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 985665000253 catalytic residues [active] 985665000254 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 985665000255 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 985665000256 active site 985665000257 Cupin domain; Region: Cupin_2; cl17218 985665000258 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665000259 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665000260 active site 985665000261 phosphorylation site [posttranslational modification] 985665000262 intermolecular recognition site; other site 985665000263 dimerization interface [polypeptide binding]; other site 985665000264 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 985665000265 DNA binding site [nucleotide binding] 985665000266 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 985665000267 ATP binding site [chemical binding]; other site 985665000268 Mg2+ binding site [ion binding]; other site 985665000269 G-X-G motif; other site 985665000270 Response regulator receiver domain; Region: Response_reg; pfam00072 985665000271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665000272 active site 985665000273 phosphorylation site [posttranslational modification] 985665000274 intermolecular recognition site; other site 985665000275 dimerization interface [polypeptide binding]; other site 985665000276 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 985665000277 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 985665000278 active site 985665000279 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 985665000280 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665000281 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 985665000282 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 985665000283 Ligand binding site; other site 985665000284 Putative Catalytic site; other site 985665000285 DXD motif; other site 985665000286 malate dehydrogenase; Provisional; Region: PRK13529 985665000287 Malic enzyme, N-terminal domain; Region: malic; pfam00390 985665000288 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 985665000289 NAD(P) binding site [chemical binding]; other site 985665000290 Membrane transport protein; Region: Mem_trans; cl09117 985665000291 Putative transcription activator [Transcription]; Region: TenA; COG0819 985665000292 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 985665000293 substrate binding site [chemical binding]; other site 985665000294 multimerization interface [polypeptide binding]; other site 985665000295 ATP binding site [chemical binding]; other site 985665000296 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 985665000297 dimer interface [polypeptide binding]; other site 985665000298 substrate binding site [chemical binding]; other site 985665000299 ATP binding site [chemical binding]; other site 985665000300 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 985665000301 thiamine phosphate binding site [chemical binding]; other site 985665000302 active site 985665000303 pyrophosphate binding site [ion binding]; other site 985665000304 Uncharacterized conserved protein [Function unknown]; Region: COG5646 985665000305 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665000306 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985665000307 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 985665000308 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 985665000309 putative NAD(P) binding site [chemical binding]; other site 985665000310 YCII-related domain; Region: YCII; cl00999 985665000311 DDE superfamily endonuclease; Region: DDE_5; cl17874 985665000312 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 985665000313 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 985665000314 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 985665000315 putative NAD(P) binding site [chemical binding]; other site 985665000316 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 985665000317 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 985665000318 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665000319 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665000320 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 985665000321 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985665000322 Protein of unknown function (DUF1271); Region: DUF1271; pfam06902 985665000323 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665000324 Coenzyme A binding pocket [chemical binding]; other site 985665000325 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 985665000326 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665000327 active site 985665000328 catalytic tetrad [active] 985665000329 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665000330 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665000331 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 985665000332 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665000333 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665000334 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 985665000335 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 985665000336 short chain dehydrogenase; Provisional; Region: PRK06500 985665000337 classical (c) SDRs; Region: SDR_c; cd05233 985665000338 NAD(P) binding site [chemical binding]; other site 985665000339 active site 985665000340 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 985665000341 putative homodimer interface [polypeptide binding]; other site 985665000342 putative homotetramer interface [polypeptide binding]; other site 985665000343 putative allosteric switch controlling residues; other site 985665000344 putative metal binding site [ion binding]; other site 985665000345 putative homodimer-homodimer interface [polypeptide binding]; other site 985665000346 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 985665000347 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 985665000348 active site 985665000349 catalytic residues [active] 985665000350 DNA binding site [nucleotide binding] 985665000351 Int/Topo IB signature motif; other site 985665000352 potential frameshift: common BLAST hit: gi|261407305|ref|YP_003243546.1| UvrD/Rep family helicase 985665000353 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665000354 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 985665000355 dimerization interface [polypeptide binding]; other site 985665000356 putative DNA binding site [nucleotide binding]; other site 985665000357 putative Zn2+ binding site [ion binding]; other site 985665000358 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 985665000359 active site 985665000360 Mn binding site [ion binding]; other site 985665000361 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665000362 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665000363 DNA binding site [nucleotide binding] 985665000364 domain linker motif; other site 985665000365 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 985665000366 putative dimerization interface [polypeptide binding]; other site 985665000367 putative ligand binding site [chemical binding]; other site 985665000368 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 985665000369 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 985665000370 NAD binding site [chemical binding]; other site 985665000371 sugar binding site [chemical binding]; other site 985665000372 divalent metal binding site [ion binding]; other site 985665000373 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985665000374 dimer interface [polypeptide binding]; other site 985665000375 Tic20-like protein; Region: Tic20; pfam09685 985665000376 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 985665000377 active site 985665000378 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 985665000379 dimer interface [polypeptide binding]; other site 985665000380 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 985665000381 Ligand Binding Site [chemical binding]; other site 985665000382 Molecular Tunnel; other site 985665000383 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 985665000384 active site 985665000385 dimerization interface [polypeptide binding]; other site 985665000386 ribonuclease PH; Reviewed; Region: rph; PRK00173 985665000387 Ribonuclease PH; Region: RNase_PH_bact; cd11362 985665000388 hexamer interface [polypeptide binding]; other site 985665000389 active site 985665000390 Spore germination protein [General function prediction only]; Region: COG5401 985665000391 Sporulation and spore germination; Region: Germane; pfam10646 985665000392 Sporulation and spore germination; Region: Germane; pfam10646 985665000393 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 985665000394 tetramer interfaces [polypeptide binding]; other site 985665000395 binuclear metal-binding site [ion binding]; other site 985665000396 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 985665000397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665000398 NAD(P) binding site [chemical binding]; other site 985665000399 active site 985665000400 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665000401 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665000402 WHG domain; Region: WHG; pfam13305 985665000403 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 985665000404 NADH(P)-binding; Region: NAD_binding_10; pfam13460 985665000405 NAD binding site [chemical binding]; other site 985665000406 putative active site [active] 985665000407 substrate binding site [chemical binding]; other site 985665000408 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 985665000409 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 985665000410 S-adenosylmethionine binding site [chemical binding]; other site 985665000411 Uncharacterized conserved protein [Function unknown]; Region: COG1359 985665000412 Protein of unknown function DUF72; Region: DUF72; pfam01904 985665000413 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 985665000414 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 985665000415 putative metal binding site; other site 985665000416 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 985665000417 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 985665000418 binding surface 985665000419 TPR motif; other site 985665000420 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 985665000421 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 985665000422 S-adenosylmethionine binding site [chemical binding]; other site 985665000423 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 985665000424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665000425 NAD(P) binding site [chemical binding]; other site 985665000426 active site 985665000427 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 985665000428 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 985665000429 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 985665000430 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 985665000431 NAD(P) binding site [chemical binding]; other site 985665000432 homodimer interface [polypeptide binding]; other site 985665000433 substrate binding site [chemical binding]; other site 985665000434 active site 985665000435 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 985665000436 Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; Region: Endoglucanase_E_like; cd01831 985665000437 active site 985665000438 catalytic triad [active] 985665000439 oxyanion hole [active] 985665000440 Cache domain; Region: Cache_1; pfam02743 985665000441 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 985665000442 dimerization interface [polypeptide binding]; other site 985665000443 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665000444 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665000445 dimer interface [polypeptide binding]; other site 985665000446 putative CheW interface [polypeptide binding]; other site 985665000447 Putative motility protein; Region: YjfB_motility; pfam14070 985665000448 hypothetical protein; Provisional; Region: PRK08201 985665000449 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 985665000450 metal binding site [ion binding]; metal-binding site 985665000451 putative dimer interface [polypeptide binding]; other site 985665000452 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 985665000453 Transcriptional regulator [Transcription]; Region: IclR; COG1414 985665000454 Bacterial transcriptional regulator; Region: IclR; pfam01614 985665000455 allantoate amidohydrolase; Reviewed; Region: PRK09290 985665000456 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 985665000457 active site 985665000458 metal binding site [ion binding]; metal-binding site 985665000459 dimer interface [polypeptide binding]; other site 985665000460 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 985665000461 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 985665000462 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 985665000463 Walker A/P-loop; other site 985665000464 ATP binding site [chemical binding]; other site 985665000465 Q-loop/lid; other site 985665000466 ABC transporter signature motif; other site 985665000467 Walker B; other site 985665000468 D-loop; other site 985665000469 H-loop/switch region; other site 985665000470 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 985665000471 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 985665000472 Walker A/P-loop; other site 985665000473 ATP binding site [chemical binding]; other site 985665000474 Q-loop/lid; other site 985665000475 ABC transporter signature motif; other site 985665000476 Walker B; other site 985665000477 D-loop; other site 985665000478 H-loop/switch region; other site 985665000479 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 985665000480 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 985665000481 TM-ABC transporter signature motif; other site 985665000482 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 985665000483 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 985665000484 TM-ABC transporter signature motif; other site 985665000485 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 985665000486 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 985665000487 Virulence protein [General function prediction only]; Region: COG3943 985665000488 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 985665000489 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 985665000490 nucleic acid binding site [nucleotide binding]; other site 985665000491 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985665000492 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 985665000493 DNA binding residues [nucleotide binding] 985665000494 dimerization interface [polypeptide binding]; other site 985665000495 Imelysin; Region: Peptidase_M75; pfam09375 985665000496 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 985665000497 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 985665000498 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 985665000499 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 985665000500 dimer interface [polypeptide binding]; other site 985665000501 active site 985665000502 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985665000503 catalytic residues [active] 985665000504 substrate binding site [chemical binding]; other site 985665000505 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665000506 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665000507 diacylglycerol glucosyltransferase; Provisional; Region: PRK13608 985665000508 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 985665000509 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 985665000510 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 985665000511 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 985665000512 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 985665000513 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 985665000514 Walker A/P-loop; other site 985665000515 ATP binding site [chemical binding]; other site 985665000516 Q-loop/lid; other site 985665000517 ABC transporter signature motif; other site 985665000518 Walker B; other site 985665000519 D-loop; other site 985665000520 H-loop/switch region; other site 985665000521 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 985665000522 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665000523 ATP-grasp domain; Region: ATP-grasp_4; cl17255 985665000524 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 985665000525 Radical SAM superfamily; Region: Radical_SAM; pfam04055 985665000526 FeS/SAM binding site; other site 985665000527 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 985665000528 acyl carrier protein; Provisional; Region: PRK07081 985665000529 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985665000530 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 985665000531 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 985665000532 putative active site [active] 985665000533 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 985665000534 active site 985665000535 trimer interface [polypeptide binding]; other site 985665000536 allosteric site; other site 985665000537 active site lid [active] 985665000538 hexamer (dimer of trimers) interface [polypeptide binding]; other site 985665000539 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 985665000540 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 985665000541 active site 985665000542 dimer interface [polypeptide binding]; other site 985665000543 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 985665000544 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 985665000545 PGAP1-like protein; Region: PGAP1; pfam07819 985665000546 YvrJ protein family; Region: YvrJ; pfam12841 985665000547 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 985665000548 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 985665000549 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 985665000550 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985665000551 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 985665000552 Walker A/P-loop; other site 985665000553 ATP binding site [chemical binding]; other site 985665000554 Q-loop/lid; other site 985665000555 ABC transporter signature motif; other site 985665000556 Walker B; other site 985665000557 D-loop; other site 985665000558 H-loop/switch region; other site 985665000559 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665000560 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 985665000561 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 985665000562 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 985665000563 active site turn [active] 985665000564 phosphorylation site [posttranslational modification] 985665000565 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665000566 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985665000567 HPr interaction site; other site 985665000568 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665000569 active site 985665000570 phosphorylation site [posttranslational modification] 985665000571 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 985665000572 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665000573 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665000574 DNA binding site [nucleotide binding] 985665000575 domain linker motif; other site 985665000576 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 985665000577 ligand binding site [chemical binding]; other site 985665000578 dimerization interface [polypeptide binding]; other site 985665000579 HTH domain; Region: HTH_11; pfam08279 985665000580 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985665000581 Mga helix-turn-helix domain; Region: Mga; pfam05043 985665000582 PRD domain; Region: PRD; pfam00874 985665000583 PRD domain; Region: PRD; pfam00874 985665000584 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 985665000585 active site 985665000586 P-loop; other site 985665000587 phosphorylation site [posttranslational modification] 985665000588 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 985665000589 active site 985665000590 phosphorylation site [posttranslational modification] 985665000591 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 985665000592 active site 985665000593 methionine cluster; other site 985665000594 phosphorylation site [posttranslational modification] 985665000595 metal binding site [ion binding]; metal-binding site 985665000596 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 985665000597 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 985665000598 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 985665000599 beta-galactosidase; Region: BGL; TIGR03356 985665000600 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 985665000601 active site 985665000602 P-loop; other site 985665000603 phosphorylation site [posttranslational modification] 985665000604 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 985665000605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665000606 NAD(P) binding site [chemical binding]; other site 985665000607 active site 985665000608 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 985665000609 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665000610 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 985665000611 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 985665000612 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 985665000613 active site 985665000614 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 985665000615 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 985665000616 active site 985665000617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665000618 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 985665000619 NAD(P) binding site [chemical binding]; other site 985665000620 active site 985665000621 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 985665000622 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 985665000623 NADP binding site [chemical binding]; other site 985665000624 active site 985665000625 putative substrate binding site [chemical binding]; other site 985665000626 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 985665000627 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 985665000628 NAD(P) binding site [chemical binding]; other site 985665000629 homodimer interface [polypeptide binding]; other site 985665000630 substrate binding site [chemical binding]; other site 985665000631 active site 985665000632 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 985665000633 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 985665000634 active site 985665000635 homodimer interface [polypeptide binding]; other site 985665000636 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 985665000637 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665000638 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 985665000639 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 985665000640 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 985665000641 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 985665000642 flagellar assembly protein H; Validated; Region: fliH; PRK05687 985665000643 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 985665000644 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 985665000645 Probable Catalytic site; other site 985665000646 metal-binding site 985665000647 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 985665000648 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 985665000649 active site 985665000650 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 985665000651 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 985665000652 Probable Catalytic site; other site 985665000653 metal-binding site 985665000654 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 985665000655 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 985665000656 active site 985665000657 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 985665000658 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 985665000659 active site 985665000660 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 985665000661 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 985665000662 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 985665000663 active site 985665000664 Zn binding site [ion binding]; other site 985665000665 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 985665000666 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 985665000667 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 985665000668 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 985665000669 active site 985665000670 Zn binding site [ion binding]; other site 985665000671 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 985665000672 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 985665000673 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 985665000674 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 985665000675 active site 985665000676 Zn binding site [ion binding]; other site 985665000677 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 985665000678 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665000679 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 985665000680 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 985665000681 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665000682 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665000683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665000684 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 985665000685 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 985665000686 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665000687 homodimer interface [polypeptide binding]; other site 985665000688 catalytic residue [active] 985665000689 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985665000690 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 985665000691 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 985665000692 dimer interface [polypeptide binding]; other site 985665000693 phosphorylation site [posttranslational modification] 985665000694 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665000695 ATP binding site [chemical binding]; other site 985665000696 Mg2+ binding site [ion binding]; other site 985665000697 G-X-G motif; other site 985665000698 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 985665000699 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 985665000700 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 985665000701 Walker A/P-loop; other site 985665000702 ATP binding site [chemical binding]; other site 985665000703 Q-loop/lid; other site 985665000704 ABC transporter signature motif; other site 985665000705 Walker B; other site 985665000706 D-loop; other site 985665000707 H-loop/switch region; other site 985665000708 helicase 45; Provisional; Region: PTZ00424 985665000709 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 985665000710 ATP binding site [chemical binding]; other site 985665000711 Mg++ binding site [ion binding]; other site 985665000712 motif III; other site 985665000713 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 985665000714 nucleotide binding region [chemical binding]; other site 985665000715 ATP-binding site [chemical binding]; other site 985665000716 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 985665000717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665000718 NAD(P) binding site [chemical binding]; other site 985665000719 active site 985665000720 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 985665000721 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 985665000722 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665000723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665000724 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 985665000725 dimerization interface [polypeptide binding]; other site 985665000726 histidinol-phosphatase; Provisional; Region: PRK07328 985665000727 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 985665000728 active site 985665000729 dimer interface [polypeptide binding]; other site 985665000730 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 985665000731 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 985665000732 synthetase active site [active] 985665000733 NTP binding site [chemical binding]; other site 985665000734 metal binding site [ion binding]; metal-binding site 985665000735 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 985665000736 non-specific DNA binding site [nucleotide binding]; other site 985665000737 salt bridge; other site 985665000738 sequence-specific DNA binding site [nucleotide binding]; other site 985665000739 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985665000740 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 985665000741 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 985665000742 Transposase, Mutator family; Region: Transposase_mut; pfam00872 985665000743 Homeodomain-like domain; Region: HTH_23; pfam13384 985665000744 Winged helix-turn helix; Region: HTH_29; pfam13551 985665000745 Homeodomain-like domain; Region: HTH_32; pfam13565 985665000746 Winged helix-turn helix; Region: HTH_33; pfam13592 985665000747 DDE superfamily endonuclease; Region: DDE_3; pfam13358 985665000748 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 985665000749 Transposase, Mutator family; Region: Transposase_mut; pfam00872 985665000750 MULE transposase domain; Region: MULE; pfam10551 985665000751 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985665000752 HPr interaction site; other site 985665000753 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665000754 active site 985665000755 phosphorylation site [posttranslational modification] 985665000756 CAT RNA binding domain; Region: CAT_RBD; cl03904 985665000757 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985665000758 PRD domain; Region: PRD; pfam00874 985665000759 PRD domain; Region: PRD; pfam00874 985665000760 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 985665000761 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 985665000762 active site turn [active] 985665000763 phosphorylation site [posttranslational modification] 985665000764 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665000765 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 985665000766 beta-galactosidase; Region: BGL; TIGR03356 985665000767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665000768 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 985665000769 NAD(P) binding site [chemical binding]; other site 985665000770 active site 985665000771 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 985665000772 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 985665000773 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 985665000774 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 985665000775 active site 985665000776 metal binding site [ion binding]; metal-binding site 985665000777 phosphodiesterase YaeI; Provisional; Region: PRK11340 985665000778 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 985665000779 putative active site [active] 985665000780 putative metal binding site [ion binding]; other site 985665000781 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 985665000782 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 985665000783 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 985665000784 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 985665000785 L-aspartate oxidase; Provisional; Region: PRK06175 985665000786 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 985665000787 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 985665000788 putative Iron-sulfur protein interface [polypeptide binding]; other site 985665000789 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 985665000790 proximal heme binding site [chemical binding]; other site 985665000791 distal heme binding site [chemical binding]; other site 985665000792 putative dimer interface [polypeptide binding]; other site 985665000793 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665000794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665000795 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 985665000796 dimerization interface [polypeptide binding]; other site 985665000797 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 985665000798 TrkA-N domain; Region: TrkA_N; pfam02254 985665000799 TrkA-C domain; Region: TrkA_C; pfam02080 985665000800 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 985665000801 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 985665000802 CAAX protease self-immunity; Region: Abi; pfam02517 985665000803 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14666 985665000804 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 985665000805 GIY-YIG motif/motif A; other site 985665000806 active site 985665000807 catalytic site [active] 985665000808 putative DNA binding site [nucleotide binding]; other site 985665000809 metal binding site [ion binding]; metal-binding site 985665000810 UvrB/uvrC motif; Region: UVR; pfam02151 985665000811 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 985665000812 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 985665000813 DNA binding site [nucleotide binding] 985665000814 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 985665000815 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 985665000816 catalytic residues [active] 985665000817 primosomal protein DnaI; Reviewed; Region: PRK08939 985665000818 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 985665000819 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 985665000820 Walker A motif; other site 985665000821 ATP binding site [chemical binding]; other site 985665000822 Walker B motif; other site 985665000823 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 985665000824 putative heme peroxidase; Provisional; Region: PRK12276 985665000825 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 985665000826 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 985665000827 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 985665000828 ABC-2 type transporter; Region: ABC2_membrane; cl17235 985665000829 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 985665000830 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 985665000831 HlyD family secretion protein; Region: HlyD_3; pfam13437 985665000832 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665000833 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 985665000834 putative DNA binding site [nucleotide binding]; other site 985665000835 putative Zn2+ binding site [ion binding]; other site 985665000836 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 985665000837 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665000838 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 985665000839 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985665000840 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665000841 Sporulation inhibitor A; Region: Sda; pfam08970 985665000842 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 985665000843 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 985665000844 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 985665000845 polyphosphate kinase; Provisional; Region: PRK05443 985665000846 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 985665000847 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 985665000848 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 985665000849 putative domain interface [polypeptide binding]; other site 985665000850 putative active site [active] 985665000851 catalytic site [active] 985665000852 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 985665000853 putative domain interface [polypeptide binding]; other site 985665000854 putative active site [active] 985665000855 catalytic site [active] 985665000856 hypothetical protein; Provisional; Region: PRK08236 985665000857 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 985665000858 Uncharacterized conserved protein [Function unknown]; Region: COG3339 985665000859 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 985665000860 EamA-like transporter family; Region: EamA; pfam00892 985665000861 EamA-like transporter family; Region: EamA; pfam00892 985665000862 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665000863 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665000864 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 985665000865 dimerization interface [polypeptide binding]; other site 985665000866 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 985665000867 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 985665000868 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 985665000869 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 985665000870 FeS/SAM binding site; other site 985665000871 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 985665000872 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665000873 hypothetical protein; Provisional; Region: PRK13669 985665000874 NifU-like domain; Region: NifU; cl00484 985665000875 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 985665000876 classical (c) SDRs; Region: SDR_c; cd05233 985665000877 NAD(P) binding site [chemical binding]; other site 985665000878 active site 985665000879 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 985665000880 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 985665000881 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 985665000882 conserved gate region; other site 985665000883 ABC-ATPase subunit interface; other site 985665000884 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 985665000885 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 985665000886 Walker A/P-loop; other site 985665000887 ATP binding site [chemical binding]; other site 985665000888 Q-loop/lid; other site 985665000889 ABC transporter signature motif; other site 985665000890 Walker B; other site 985665000891 D-loop; other site 985665000892 H-loop/switch region; other site 985665000893 NIL domain; Region: NIL; pfam09383 985665000894 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 985665000895 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 985665000896 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 985665000897 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 985665000898 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 985665000899 catalytic residues [active] 985665000900 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 985665000901 stage V sporulation protein B; Region: spore_V_B; TIGR02900 985665000902 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 985665000903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 985665000904 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 985665000905 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 985665000906 active site 985665000907 motif I; other site 985665000908 motif II; other site 985665000909 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 985665000910 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 985665000911 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 985665000912 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 985665000913 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 985665000914 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 985665000915 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 985665000916 Colicin V production protein; Region: Colicin_V; pfam02674 985665000917 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 985665000918 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 985665000919 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665000920 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665000921 putative substrate translocation pore; other site 985665000922 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 985665000923 active site 985665000924 metal binding site [ion binding]; metal-binding site 985665000925 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 985665000926 UbiA prenyltransferase family; Region: UbiA; pfam01040 985665000927 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 985665000928 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 985665000929 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 985665000930 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 985665000931 active site 985665000932 HIGH motif; other site 985665000933 dimer interface [polypeptide binding]; other site 985665000934 KMSKS motif; other site 985665000935 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 985665000936 active site 985665000937 catalytic residues [active] 985665000938 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 985665000939 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 985665000940 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 985665000941 active site 985665000942 Zn binding site [ion binding]; other site 985665000943 YycC-like protein; Region: YycC; pfam14174 985665000944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 985665000945 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 985665000946 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 985665000947 apolar tunnel; other site 985665000948 heme binding site [chemical binding]; other site 985665000949 dimerization interface [polypeptide binding]; other site 985665000950 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 985665000951 Nucleoside recognition; Region: Gate; pfam07670 985665000952 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 985665000953 ATP-NAD kinase; Region: NAD_kinase; pfam01513 985665000954 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 985665000955 lipoyl synthase; Provisional; Region: PRK05481 985665000956 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 985665000957 FeS/SAM binding site; other site 985665000958 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 985665000959 Peptidase family M23; Region: Peptidase_M23; pfam01551 985665000960 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 985665000961 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 985665000962 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665000963 active site 985665000964 catalytic tetrad [active] 985665000965 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 985665000966 A new structural DNA glycosylase; Region: AlkD_like; cd06561 985665000967 active site 985665000968 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 985665000969 endonuclease III; Region: ENDO3c; smart00478 985665000970 minor groove reading motif; other site 985665000971 helix-hairpin-helix signature motif; other site 985665000972 substrate binding pocket [chemical binding]; other site 985665000973 active site 985665000974 Radical SAM superfamily; Region: Radical_SAM; pfam04055 985665000975 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 985665000976 FeS/SAM binding site; other site 985665000977 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 985665000978 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 985665000979 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 985665000980 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 985665000981 DNA binding site [nucleotide binding] 985665000982 active site 985665000983 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 985665000984 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 985665000985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665000986 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665000987 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 985665000988 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 985665000989 active site turn [active] 985665000990 phosphorylation site [posttranslational modification] 985665000991 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665000992 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 985665000993 HPr interaction site; other site 985665000994 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665000995 active site 985665000996 phosphorylation site [posttranslational modification] 985665000997 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985665000998 CAT RNA binding domain; Region: CAT_RBD; smart01061 985665000999 PRD domain; Region: PRD; pfam00874 985665001000 PRD domain; Region: PRD; pfam00874 985665001001 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 985665001002 beta-galactosidase; Region: BGL; TIGR03356 985665001003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665001004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665001005 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 985665001006 putative dimerization interface [polypeptide binding]; other site 985665001007 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 985665001008 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 985665001009 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 985665001010 dimer interface [polypeptide binding]; other site 985665001011 conserved gate region; other site 985665001012 putative PBP binding loops; other site 985665001013 ABC-ATPase subunit interface; other site 985665001014 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 985665001015 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 985665001016 dimer interface [polypeptide binding]; other site 985665001017 conserved gate region; other site 985665001018 putative PBP binding loops; other site 985665001019 ABC-ATPase subunit interface; other site 985665001020 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 985665001021 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 985665001022 Walker A/P-loop; other site 985665001023 ATP binding site [chemical binding]; other site 985665001024 Q-loop/lid; other site 985665001025 ABC transporter signature motif; other site 985665001026 Walker B; other site 985665001027 D-loop; other site 985665001028 H-loop/switch region; other site 985665001029 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 985665001030 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 985665001031 active site 985665001032 metal binding site [ion binding]; metal-binding site 985665001033 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 985665001034 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 985665001035 putative NAD(P) binding site [chemical binding]; other site 985665001036 putative substrate binding site [chemical binding]; other site 985665001037 catalytic Zn binding site [ion binding]; other site 985665001038 structural Zn binding site [ion binding]; other site 985665001039 dimer interface [polypeptide binding]; other site 985665001040 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985665001041 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 985665001042 active site 985665001043 FMN binding site [chemical binding]; other site 985665001044 substrate binding site [chemical binding]; other site 985665001045 homotetramer interface [polypeptide binding]; other site 985665001046 catalytic residue [active] 985665001047 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985665001048 MarR family; Region: MarR_2; pfam12802 985665001049 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 985665001050 dimerization interface [polypeptide binding]; other site 985665001051 putative DNA binding site [nucleotide binding]; other site 985665001052 putative Zn2+ binding site [ion binding]; other site 985665001053 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 985665001054 hydrophobic ligand binding site; other site 985665001055 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985665001056 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 985665001057 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 985665001058 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 985665001059 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 985665001060 substrate binding [chemical binding]; other site 985665001061 active site 985665001062 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 985665001063 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 985665001064 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 985665001065 putative substrate binding site [chemical binding]; other site 985665001066 putative ATP binding site [chemical binding]; other site 985665001067 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 985665001068 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 985665001069 substrate binding [chemical binding]; other site 985665001070 active site 985665001071 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 985665001072 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665001073 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665001074 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665001075 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 985665001076 dimer interface [polypeptide binding]; other site 985665001077 conserved gate region; other site 985665001078 putative PBP binding loops; other site 985665001079 ABC-ATPase subunit interface; other site 985665001080 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665001081 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 985665001082 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 985665001083 ABC-ATPase subunit interface; other site 985665001084 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665001085 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665001086 DNA binding site [nucleotide binding] 985665001087 domain linker motif; other site 985665001088 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 985665001089 dimerization interface [polypeptide binding]; other site 985665001090 ligand binding site [chemical binding]; other site 985665001091 sodium binding site [ion binding]; other site 985665001092 Glycosyl hydrolase family 32; Region: GH32_Aec43_like; cd08995 985665001093 active site 985665001094 Glycosyl hydrolases family 32 N-terminal domain; Region: Glyco_hydro_32N; pfam00251 985665001095 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665001096 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665001097 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665001098 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 985665001099 dimer interface [polypeptide binding]; other site 985665001100 conserved gate region; other site 985665001101 putative PBP binding loops; other site 985665001102 ABC-ATPase subunit interface; other site 985665001103 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665001104 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 985665001105 dimer interface [polypeptide binding]; other site 985665001106 conserved gate region; other site 985665001107 putative PBP binding loops; other site 985665001108 ABC-ATPase subunit interface; other site 985665001109 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 985665001110 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665001111 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665001112 DNA binding site [nucleotide binding] 985665001113 domain linker motif; other site 985665001114 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 985665001115 dimerization interface [polypeptide binding]; other site 985665001116 ligand binding site [chemical binding]; other site 985665001117 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985665001118 HTH domain; Region: HTH_11; pfam08279 985665001119 Mga helix-turn-helix domain; Region: Mga; pfam05043 985665001120 PRD domain; Region: PRD; pfam00874 985665001121 PRD domain; Region: PRD; pfam00874 985665001122 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 985665001123 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 985665001124 active site 985665001125 phosphorylation site [posttranslational modification] 985665001126 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 985665001127 active site 985665001128 methionine cluster; other site 985665001129 phosphorylation site [posttranslational modification] 985665001130 metal binding site [ion binding]; metal-binding site 985665001131 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 985665001132 active site 985665001133 P-loop; other site 985665001134 phosphorylation site [posttranslational modification] 985665001135 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 985665001136 Domain of unknown function (DUF386); Region: DUF386; cl01047 985665001137 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 985665001138 beta-galactosidase; Region: BGL; TIGR03356 985665001139 Predicted permeases [General function prediction only]; Region: COG0679 985665001140 Tautomerase enzyme; Region: Tautomerase; pfam01361 985665001141 Nitronate monooxygenase; Region: NMO; pfam03060 985665001142 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 985665001143 FMN binding site [chemical binding]; other site 985665001144 substrate binding site [chemical binding]; other site 985665001145 putative catalytic residue [active] 985665001146 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 985665001147 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665001148 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665001149 putative substrate translocation pore; other site 985665001150 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 985665001151 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 985665001152 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665001153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665001154 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 985665001155 putative dimerization interface [polypeptide binding]; other site 985665001156 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 985665001157 putative active site [active] 985665001158 YdjC motif; other site 985665001159 Mg binding site [ion binding]; other site 985665001160 putative homodimer interface [polypeptide binding]; other site 985665001161 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 985665001162 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 985665001163 active site turn [active] 985665001164 phosphorylation site [posttranslational modification] 985665001165 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665001166 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985665001167 HPr interaction site; other site 985665001168 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665001169 active site 985665001170 phosphorylation site [posttranslational modification] 985665001171 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985665001172 CAT RNA binding domain; Region: CAT_RBD; smart01061 985665001173 PRD domain; Region: PRD; pfam00874 985665001174 PRD domain; Region: PRD; pfam00874 985665001175 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 985665001176 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 985665001177 NAD(P) binding site [chemical binding]; other site 985665001178 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 985665001179 ApbE family; Region: ApbE; pfam02424 985665001180 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985665001181 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 985665001182 putative active site [active] 985665001183 putative FMN binding site [chemical binding]; other site 985665001184 putative substrate binding site [chemical binding]; other site 985665001185 putative catalytic residue [active] 985665001186 FMN-binding domain; Region: FMN_bind; cl01081 985665001187 FAD binding domain; Region: FAD_binding_2; pfam00890 985665001188 L-aspartate oxidase; Provisional; Region: PRK06175 985665001189 Protein of unknown function, DUF606; Region: DUF606; pfam04657 985665001190 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665001191 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665001192 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 985665001193 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 985665001194 CoA-transferase family III; Region: CoA_transf_3; pfam02515 985665001195 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 985665001196 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR4; cd08270 985665001197 putative NAD(P) binding site [chemical binding]; other site 985665001198 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 985665001199 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 985665001200 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 985665001201 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 985665001202 TrkA-N domain; Region: TrkA_N; pfam02254 985665001203 TrkA-C domain; Region: TrkA_C; pfam02080 985665001204 Small, acid-soluble spore protein I; Region: SSPI; cl07940 985665001205 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 985665001206 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 985665001207 G1 box; other site 985665001208 putative GEF interaction site [polypeptide binding]; other site 985665001209 GTP/Mg2+ binding site [chemical binding]; other site 985665001210 Switch I region; other site 985665001211 G2 box; other site 985665001212 G3 box; other site 985665001213 Switch II region; other site 985665001214 G4 box; other site 985665001215 G5 box; other site 985665001216 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 985665001217 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 985665001218 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 985665001219 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 985665001220 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 985665001221 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985665001222 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665001223 active site 985665001224 phosphorylation site [posttranslational modification] 985665001225 intermolecular recognition site; other site 985665001226 dimerization interface [polypeptide binding]; other site 985665001227 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 985665001228 DNA binding residues [nucleotide binding] 985665001229 dimerization interface [polypeptide binding]; other site 985665001230 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 985665001231 Histidine kinase; Region: HisKA_3; pfam07730 985665001232 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665001233 ATP binding site [chemical binding]; other site 985665001234 Mg2+ binding site [ion binding]; other site 985665001235 G-X-G motif; other site 985665001236 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 985665001237 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 985665001238 PspC domain; Region: PspC; pfam04024 985665001239 phage shock protein A; Region: phageshock_pspA; TIGR02977 985665001240 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665001241 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665001242 putative substrate translocation pore; other site 985665001243 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665001244 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665001245 Methyltransferase domain; Region: Methyltransf_23; pfam13489 985665001246 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 985665001247 S-adenosylmethionine binding site [chemical binding]; other site 985665001248 potential frameshift: common BLAST hit: gi|150391686|ref|YP_001321735.1| cobyrinic acid a,c-diamide synthase 985665001249 potential frameshift: common BLAST hit: gi|150391686|ref|YP_001321735.1| cobyrinic acid a,c-diamide synthase 985665001250 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 985665001251 dimer interface [polypeptide binding]; other site 985665001252 FMN binding site [chemical binding]; other site 985665001253 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665001254 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665001255 Skp1 family, dimerisation domain; Region: Skp1; pfam01466 985665001256 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 985665001257 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 985665001258 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 985665001259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665001260 NAD(P) binding site [chemical binding]; other site 985665001261 active site 985665001262 4Fe-4S binding domain; Region: Fer4; pfam00037 985665001263 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 985665001264 SCP-2 sterol transfer family; Region: SCP2; pfam02036 985665001265 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985665001266 MarR family; Region: MarR_2; pfam12802 985665001267 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 985665001268 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 985665001269 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665001270 MarR family; Region: MarR; pfam01047 985665001271 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 985665001272 dimer interface [polypeptide binding]; other site 985665001273 FMN binding site [chemical binding]; other site 985665001274 NADPH bind site [chemical binding]; other site 985665001275 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 985665001276 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 985665001277 FMN binding site [chemical binding]; other site 985665001278 substrate binding site [chemical binding]; other site 985665001279 putative catalytic residue [active] 985665001280 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 985665001281 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 985665001282 FMN binding site [chemical binding]; other site 985665001283 substrate binding site [chemical binding]; other site 985665001284 putative catalytic residue [active] 985665001285 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 985665001286 active site 985665001287 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 985665001288 non-prolyl cis peptide bond; other site 985665001289 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 985665001290 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 985665001291 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 985665001292 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665001293 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 985665001294 putative DNA binding site [nucleotide binding]; other site 985665001295 dimerization interface [polypeptide binding]; other site 985665001296 putative Zn2+ binding site [ion binding]; other site 985665001297 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 985665001298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665001299 NAD(P) binding site [chemical binding]; other site 985665001300 active site 985665001301 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665001302 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665001303 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 985665001304 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665001305 putative substrate translocation pore; other site 985665001306 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665001307 putative heme peroxidase; Provisional; Region: PRK12276 985665001308 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 985665001309 homotrimer interaction site [polypeptide binding]; other site 985665001310 putative active site [active] 985665001311 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 985665001312 Predicted permeases [General function prediction only]; Region: RarD; COG2962 985665001313 putative transposase OrfB; Reviewed; Region: PHA02517 985665001314 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665001315 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665001316 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 985665001317 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 985665001318 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 985665001319 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 985665001320 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; cl00470 985665001321 Helix-turn-helix domain; Region: HTH_16; pfam12645 985665001322 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 985665001323 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665001324 MarR family; Region: MarR_2; pfam12802 985665001325 MULE transposase domain; Region: MULE; pfam10551 985665001326 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665001327 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665001328 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665001329 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 985665001330 dimerization interface [polypeptide binding]; other site 985665001331 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 985665001332 dimer interface [polypeptide binding]; other site 985665001333 phosphorylation site [posttranslational modification] 985665001334 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665001335 ATP binding site [chemical binding]; other site 985665001336 Mg2+ binding site [ion binding]; other site 985665001337 G-X-G motif; other site 985665001338 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665001339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665001340 active site 985665001341 phosphorylation site [posttranslational modification] 985665001342 intermolecular recognition site; other site 985665001343 dimerization interface [polypeptide binding]; other site 985665001344 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 985665001345 DNA binding site [nucleotide binding] 985665001346 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985665001347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665001348 Walker A/P-loop; other site 985665001349 ATP binding site [chemical binding]; other site 985665001350 Q-loop/lid; other site 985665001351 ABC transporter signature motif; other site 985665001352 Walker B; other site 985665001353 D-loop; other site 985665001354 H-loop/switch region; other site 985665001355 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 985665001356 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 985665001357 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 985665001358 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 985665001359 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 985665001360 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 985665001361 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 985665001362 substrate binding site [chemical binding]; other site 985665001363 trimer interface [polypeptide binding]; other site 985665001364 oxyanion hole (OAH) forming residues; other site 985665001365 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 985665001366 enoyl-CoA hydratase; Region: PLN02600 985665001367 substrate binding site [chemical binding]; other site 985665001368 trimer interface [polypeptide binding]; other site 985665001369 oxyanion hole (OAH) forming residues; other site 985665001370 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985665001371 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 985665001372 metal binding site [ion binding]; metal-binding site 985665001373 dimer interface [polypeptide binding]; other site 985665001374 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 985665001375 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665001376 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665001377 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 985665001378 dimerization interface [polypeptide binding]; other site 985665001379 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 985665001380 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 985665001381 ligand binding site [chemical binding]; other site 985665001382 NAD binding site [chemical binding]; other site 985665001383 dimerization interface [polypeptide binding]; other site 985665001384 catalytic site [active] 985665001385 NifU-like domain; Region: NifU; cl00484 985665001386 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 985665001387 FeS assembly protein SufB; Region: sufB; TIGR01980 985665001388 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 985665001389 FeS assembly protein SufD; Region: sufD; TIGR01981 985665001390 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 985665001391 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 985665001392 Walker A/P-loop; other site 985665001393 ATP binding site [chemical binding]; other site 985665001394 Q-loop/lid; other site 985665001395 ABC transporter signature motif; other site 985665001396 Walker B; other site 985665001397 D-loop; other site 985665001398 H-loop/switch region; other site 985665001399 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665001400 MarR family; Region: MarR; pfam01047 985665001401 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 985665001402 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 985665001403 DNA binding residues [nucleotide binding] 985665001404 Helix-turn-helix domain; Region: HTH_16; pfam12645 985665001405 Transcriptional regulators [Transcription]; Region: FadR; COG2186 985665001406 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665001407 DNA-binding site [nucleotide binding]; DNA binding site 985665001408 FCD domain; Region: FCD; pfam07729 985665001409 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 985665001410 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665001411 putative substrate translocation pore; other site 985665001412 potential protein location (hypothetical protein HPL003_02510 [Paenibacillus sp. HPL-003]) that overlaps RNA (tRNA-C) 985665001413 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665001414 Bacterial SH3 domain; Region: SH3_3; cl17532 985665001415 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 985665001416 active site 985665001417 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 985665001418 metal binding site 2 [ion binding]; metal-binding site 985665001419 putative DNA binding helix; other site 985665001420 metal binding site 1 [ion binding]; metal-binding site 985665001421 dimer interface [polypeptide binding]; other site 985665001422 structural Zn2+ binding site [ion binding]; other site 985665001423 Uncharacterized conserved protein [Function unknown]; Region: COG3595 985665001424 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 985665001425 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 985665001426 MgtC family; Region: MgtC; pfam02308 985665001427 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 985665001428 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665001429 Coenzyme A binding pocket [chemical binding]; other site 985665001430 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 985665001431 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 985665001432 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 985665001433 GatB domain; Region: GatB_Yqey; smart00845 985665001434 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 985665001435 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 985665001436 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 985665001437 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 985665001438 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 985665001439 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 985665001440 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 985665001441 Methyltransferase domain; Region: Methyltransf_31; pfam13847 985665001442 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 985665001443 S-adenosylmethionine binding site [chemical binding]; other site 985665001444 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 985665001445 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 985665001446 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 985665001447 Protein of unknown function (DUF1128); Region: DUF1128; cl11553 985665001448 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 985665001449 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 985665001450 active site 985665001451 Escherichia coli CorA-Salmonella typhimurium ZntB_like family; Region: EcCorA_ZntB-like; cd12821 985665001452 Cl binding site [ion binding]; other site 985665001453 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 985665001454 oligomer interface [polypeptide binding]; other site 985665001455 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 985665001456 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665001457 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 985665001458 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 985665001459 DNA binding residues [nucleotide binding] 985665001460 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 985665001461 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665001462 ATP binding site [chemical binding]; other site 985665001463 Mg2+ binding site [ion binding]; other site 985665001464 G-X-G motif; other site 985665001465 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 985665001466 anti sigma factor interaction site; other site 985665001467 regulatory phosphorylation site [posttranslational modification]; other site 985665001468 Response regulator receiver domain; Region: Response_reg; pfam00072 985665001469 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665001470 active site 985665001471 phosphorylation site [posttranslational modification] 985665001472 intermolecular recognition site; other site 985665001473 dimerization interface [polypeptide binding]; other site 985665001474 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665001475 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 985665001476 dimer interface [polypeptide binding]; other site 985665001477 phosphorylation site [posttranslational modification] 985665001478 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665001479 ATP binding site [chemical binding]; other site 985665001480 Mg2+ binding site [ion binding]; other site 985665001481 G-X-G motif; other site 985665001482 Response regulator receiver domain; Region: Response_reg; pfam00072 985665001483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665001484 active site 985665001485 phosphorylation site [posttranslational modification] 985665001486 intermolecular recognition site; other site 985665001487 dimerization interface [polypeptide binding]; other site 985665001488 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 985665001489 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 985665001490 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 985665001491 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 985665001492 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 985665001493 GAF domain; Region: GAF_3; pfam13492 985665001494 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 985665001495 dimer interface [polypeptide binding]; other site 985665001496 phosphorylation site [posttranslational modification] 985665001497 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665001498 ATP binding site [chemical binding]; other site 985665001499 Mg2+ binding site [ion binding]; other site 985665001500 G-X-G motif; other site 985665001501 Response regulator receiver domain; Region: Response_reg; pfam00072 985665001502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665001503 active site 985665001504 phosphorylation site [posttranslational modification] 985665001505 intermolecular recognition site; other site 985665001506 dimerization interface [polypeptide binding]; other site 985665001507 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 985665001508 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665001509 active site 985665001510 phosphorylation site [posttranslational modification] 985665001511 intermolecular recognition site; other site 985665001512 dimerization interface [polypeptide binding]; other site 985665001513 Response regulator receiver domain; Region: Response_reg; pfam00072 985665001514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665001515 active site 985665001516 phosphorylation site [posttranslational modification] 985665001517 intermolecular recognition site; other site 985665001518 dimerization interface [polypeptide binding]; other site 985665001519 Response regulator receiver domain; Region: Response_reg; pfam00072 985665001520 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665001521 active site 985665001522 phosphorylation site [posttranslational modification] 985665001523 intermolecular recognition site; other site 985665001524 dimerization interface [polypeptide binding]; other site 985665001525 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 985665001526 Heat induced stress protein YflT; Region: YflT; pfam11181 985665001527 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 985665001528 Bacterial SH3 domain; Region: SH3_3; pfam08239 985665001529 Bacterial SH3 domain; Region: SH3_3; pfam08239 985665001530 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 985665001531 NlpC/P60 family; Region: NLPC_P60; pfam00877 985665001532 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 985665001533 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 985665001534 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 985665001535 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665001536 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665001537 ABC transporter; Region: ABC_tran_2; pfam12848 985665001538 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665001539 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 985665001540 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 985665001541 Walker A/P-loop; other site 985665001542 ATP binding site [chemical binding]; other site 985665001543 Q-loop/lid; other site 985665001544 ABC transporter signature motif; other site 985665001545 Walker B; other site 985665001546 D-loop; other site 985665001547 H-loop/switch region; other site 985665001548 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985665001549 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 985665001550 dimer interface [polypeptide binding]; other site 985665001551 ABC-ATPase subunit interface; other site 985665001552 putative PBP binding regions; other site 985665001553 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 985665001554 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 985665001555 intersubunit interface [polypeptide binding]; other site 985665001556 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 985665001557 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985665001558 heme-binding site [chemical binding]; other site 985665001559 Cell surface protein [Cell envelope biogenesis, outer membrane]; Region: COG5386 985665001560 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985665001561 heme-binding site [chemical binding]; other site 985665001562 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985665001563 heme-binding site [chemical binding]; other site 985665001564 Cell surface protein [Cell envelope biogenesis, outer membrane]; Region: COG5386 985665001565 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985665001566 heme-binding site [chemical binding]; other site 985665001567 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985665001568 heme-binding site [chemical binding]; other site 985665001569 Cell surface protein [Cell envelope biogenesis, outer membrane]; Region: COG5386 985665001570 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985665001571 heme-binding site [chemical binding]; other site 985665001572 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985665001573 heme-binding site [chemical binding]; other site 985665001574 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985665001575 heme-binding site [chemical binding]; other site 985665001576 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985665001577 heme-binding site [chemical binding]; other site 985665001578 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985665001579 heme-binding site [chemical binding]; other site 985665001580 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 985665001581 heme-binding site [chemical binding]; other site 985665001582 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 985665001583 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 985665001584 intersubunit interface [polypeptide binding]; other site 985665001585 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 985665001586 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 985665001587 dimer interface [polypeptide binding]; other site 985665001588 ABC-ATPase subunit interface; other site 985665001589 putative PBP binding regions; other site 985665001590 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 985665001591 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 985665001592 Walker A/P-loop; other site 985665001593 ATP binding site [chemical binding]; other site 985665001594 Q-loop/lid; other site 985665001595 ABC transporter signature motif; other site 985665001596 Walker B; other site 985665001597 D-loop; other site 985665001598 H-loop/switch region; other site 985665001599 heme-degrading monooxygenase IsdG; Provisional; Region: PRK13314 985665001600 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 985665001601 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 985665001602 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 985665001603 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 985665001604 MarR family; Region: MarR_2; cl17246 985665001605 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 985665001606 Virulence factor; Region: Virulence_fact; pfam13769 985665001607 HEAT repeats; Region: HEAT_2; pfam13646 985665001608 HEAT repeats; Region: HEAT_2; pfam13646 985665001609 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 985665001610 lysine transporter; Provisional; Region: PRK10836 985665001611 H+ Antiporter protein; Region: 2A0121; TIGR00900 985665001612 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 985665001613 FeoA domain; Region: FeoA; cl00838 985665001614 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 985665001615 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 985665001616 G1 box; other site 985665001617 GTP/Mg2+ binding site [chemical binding]; other site 985665001618 Switch I region; other site 985665001619 G2 box; other site 985665001620 G3 box; other site 985665001621 Switch II region; other site 985665001622 G4 box; other site 985665001623 G5 box; other site 985665001624 Nucleoside recognition; Region: Gate; pfam07670 985665001625 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 985665001626 Nucleoside recognition; Region: Gate; pfam07670 985665001627 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 985665001628 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 985665001629 N- and C-terminal domain interface [polypeptide binding]; other site 985665001630 D-xylulose kinase; Region: XylB; TIGR01312 985665001631 active site 985665001632 MgATP binding site [chemical binding]; other site 985665001633 catalytic site [active] 985665001634 metal binding site [ion binding]; metal-binding site 985665001635 xylulose binding site [chemical binding]; other site 985665001636 homodimer interface [polypeptide binding]; other site 985665001637 xylose isomerase; Provisional; Region: PRK05474 985665001638 xylose isomerase; Region: xylose_isom_A; TIGR02630 985665001639 MarR family; Region: MarR_2; pfam12802 985665001640 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985665001641 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 985665001642 nucleotide binding site [chemical binding]; other site 985665001643 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 985665001644 catalytic residues [active] 985665001645 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 985665001646 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985665001647 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665001648 ZIP Zinc transporter; Region: Zip; pfam02535 985665001649 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 985665001650 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 985665001651 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985665001652 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 985665001653 lipoyl-biotinyl attachment site [posttranslational modification]; other site 985665001654 HlyD family secretion protein; Region: HlyD_3; pfam13437 985665001655 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985665001656 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665001657 putative substrate translocation pore; other site 985665001658 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 985665001659 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 985665001660 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 985665001661 motif II; other site 985665001662 pyruvate phosphate dikinase; Provisional; Region: PRK09279 985665001663 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 985665001664 metal-binding site [ion binding] 985665001665 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 985665001666 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 985665001667 Soluble P-type ATPase [General function prediction only]; Region: COG4087 985665001668 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 985665001669 dimerization interface [polypeptide binding]; other site 985665001670 putative DNA binding site [nucleotide binding]; other site 985665001671 putative Zn2+ binding site [ion binding]; other site 985665001672 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985665001673 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 985665001674 putative active site [active] 985665001675 putative FMN binding site [chemical binding]; other site 985665001676 putative substrate binding site [chemical binding]; other site 985665001677 putative catalytic residue [active] 985665001678 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 985665001679 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 985665001680 Subunit I/III interface [polypeptide binding]; other site 985665001681 Subunit III/IV interface [polypeptide binding]; other site 985665001682 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 985665001683 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 985665001684 D-pathway; other site 985665001685 Putative ubiquinol binding site [chemical binding]; other site 985665001686 Low-spin heme (heme b) binding site [chemical binding]; other site 985665001687 Putative water exit pathway; other site 985665001688 Binuclear center (heme o3/CuB) [ion binding]; other site 985665001689 K-pathway; other site 985665001690 Putative proton exit pathway; other site 985665001691 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 985665001692 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 985665001693 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 985665001694 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 985665001695 beta-galactosidase; Region: BGL; TIGR03356 985665001696 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665001697 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665001698 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665001699 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 985665001700 dimer interface [polypeptide binding]; other site 985665001701 ABC-ATPase subunit interface; other site 985665001702 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665001703 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 985665001704 dimer interface [polypeptide binding]; other site 985665001705 conserved gate region; other site 985665001706 putative PBP binding loops; other site 985665001707 ABC-ATPase subunit interface; other site 985665001708 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985665001709 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665001710 Walker A/P-loop; other site 985665001711 ATP binding site [chemical binding]; other site 985665001712 Q-loop/lid; other site 985665001713 ABC transporter signature motif; other site 985665001714 Walker B; other site 985665001715 D-loop; other site 985665001716 H-loop/switch region; other site 985665001717 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985665001718 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665001719 Walker A/P-loop; other site 985665001720 ATP binding site [chemical binding]; other site 985665001721 Q-loop/lid; other site 985665001722 ABC transporter signature motif; other site 985665001723 Walker B; other site 985665001724 D-loop; other site 985665001725 H-loop/switch region; other site 985665001726 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985665001727 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 985665001728 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 985665001729 dimer interface [polypeptide binding]; other site 985665001730 conserved gate region; other site 985665001731 putative PBP binding loops; other site 985665001732 ABC-ATPase subunit interface; other site 985665001733 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665001734 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 985665001735 dimer interface [polypeptide binding]; other site 985665001736 conserved gate region; other site 985665001737 putative PBP binding loops; other site 985665001738 ABC-ATPase subunit interface; other site 985665001739 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985665001740 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 985665001741 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 985665001742 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985665001743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665001744 active site 985665001745 phosphorylation site [posttranslational modification] 985665001746 intermolecular recognition site; other site 985665001747 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 985665001748 DNA binding residues [nucleotide binding] 985665001749 dimerization interface [polypeptide binding]; other site 985665001750 Histidine kinase; Region: HisKA_3; pfam07730 985665001751 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665001752 ATP binding site [chemical binding]; other site 985665001753 Mg2+ binding site [ion binding]; other site 985665001754 G-X-G motif; other site 985665001755 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 985665001756 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 985665001757 Walker A/P-loop; other site 985665001758 ATP binding site [chemical binding]; other site 985665001759 Q-loop/lid; other site 985665001760 ABC transporter signature motif; other site 985665001761 Walker B; other site 985665001762 D-loop; other site 985665001763 H-loop/switch region; other site 985665001764 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 985665001765 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665001766 Walker A/P-loop; other site 985665001767 ATP binding site [chemical binding]; other site 985665001768 Q-loop/lid; other site 985665001769 ABC transporter signature motif; other site 985665001770 Walker B; other site 985665001771 D-loop; other site 985665001772 H-loop/switch region; other site 985665001773 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 985665001774 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 985665001775 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 985665001776 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 985665001777 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665001778 Response regulator receiver domain; Region: Response_reg; pfam00072 985665001779 active site 985665001780 phosphorylation site [posttranslational modification] 985665001781 intermolecular recognition site; other site 985665001782 dimerization interface [polypeptide binding]; other site 985665001783 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665001784 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665001785 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665001786 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665001787 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 985665001788 dimerization interface [polypeptide binding]; other site 985665001789 Histidine kinase; Region: His_kinase; pfam06580 985665001790 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665001791 ATP binding site [chemical binding]; other site 985665001792 Mg2+ binding site [ion binding]; other site 985665001793 G-X-G motif; other site 985665001794 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 985665001795 active site 985665001796 catalytic residues [active] 985665001797 metal binding site [ion binding]; metal-binding site 985665001798 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 985665001799 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 985665001800 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 985665001801 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 985665001802 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 985665001803 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 985665001804 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 985665001805 active site 985665001806 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 985665001807 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 985665001808 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 985665001809 active site 985665001810 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 985665001811 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 985665001812 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 985665001813 Domain of unknown function DUF21; Region: DUF21; pfam01595 985665001814 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 985665001815 Transporter associated domain; Region: CorC_HlyC; cl08393 985665001816 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 985665001817 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 985665001818 catalytic residues [active] 985665001819 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 985665001820 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665001821 active site 985665001822 catalytic tetrad [active] 985665001823 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 985665001824 Putative esterase; Region: Esterase; pfam00756 985665001825 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 985665001826 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 985665001827 putative ligand binding residues [chemical binding]; other site 985665001828 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 985665001829 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 985665001830 Walker A/P-loop; other site 985665001831 ATP binding site [chemical binding]; other site 985665001832 Q-loop/lid; other site 985665001833 ABC transporter signature motif; other site 985665001834 Walker B; other site 985665001835 D-loop; other site 985665001836 H-loop/switch region; other site 985665001837 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 985665001838 ABC-ATPase subunit interface; other site 985665001839 dimer interface [polypeptide binding]; other site 985665001840 putative PBP binding regions; other site 985665001841 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985665001842 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 985665001843 ABC-ATPase subunit interface; other site 985665001844 dimer interface [polypeptide binding]; other site 985665001845 putative PBP binding regions; other site 985665001846 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665001847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665001848 active site 985665001849 phosphorylation site [posttranslational modification] 985665001850 intermolecular recognition site; other site 985665001851 dimerization interface [polypeptide binding]; other site 985665001852 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 985665001853 DNA binding site [nucleotide binding] 985665001854 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665001855 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 985665001856 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665001857 ATP binding site [chemical binding]; other site 985665001858 Mg2+ binding site [ion binding]; other site 985665001859 G-X-G motif; other site 985665001860 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985665001861 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 985665001862 Walker A/P-loop; other site 985665001863 ATP binding site [chemical binding]; other site 985665001864 Q-loop/lid; other site 985665001865 ABC transporter signature motif; other site 985665001866 Walker B; other site 985665001867 D-loop; other site 985665001868 H-loop/switch region; other site 985665001869 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 985665001870 FtsX-like permease family; Region: FtsX; pfam02687 985665001871 FtsX-like permease family; Region: FtsX; pfam02687 985665001872 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985665001873 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985665001874 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 985665001875 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985665001876 Zn binding site [ion binding]; other site 985665001877 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 985665001878 Zn binding site [ion binding]; other site 985665001879 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 985665001880 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 985665001881 active site 985665001882 Zn binding site [ion binding]; other site 985665001883 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 985665001884 dimer interface [polypeptide binding]; other site 985665001885 substrate binding site [chemical binding]; other site 985665001886 ATP binding site [chemical binding]; other site 985665001887 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 985665001888 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 985665001889 active site 985665001890 metal binding site [ion binding]; metal-binding site 985665001891 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 985665001892 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 985665001893 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 985665001894 membrane-bound complex binding site; other site 985665001895 hinge residues; other site 985665001896 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 985665001897 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 985665001898 Walker A/P-loop; other site 985665001899 ATP binding site [chemical binding]; other site 985665001900 Q-loop/lid; other site 985665001901 ABC transporter signature motif; other site 985665001902 Walker B; other site 985665001903 D-loop; other site 985665001904 H-loop/switch region; other site 985665001905 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 985665001906 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 985665001907 dimer interface [polypeptide binding]; other site 985665001908 conserved gate region; other site 985665001909 ABC-ATPase subunit interface; other site 985665001910 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 985665001911 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 985665001912 dimer interface [polypeptide binding]; other site 985665001913 conserved gate region; other site 985665001914 putative PBP binding loops; other site 985665001915 ABC-ATPase subunit interface; other site 985665001916 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 985665001917 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 985665001918 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985665001919 catalytic residue [active] 985665001920 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 985665001921 dimer interface [polypeptide binding]; other site 985665001922 conserved gate region; other site 985665001923 putative PBP binding loops; other site 985665001924 ABC-ATPase subunit interface; other site 985665001925 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 985665001926 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 985665001927 dimer interface [polypeptide binding]; other site 985665001928 conserved gate region; other site 985665001929 putative PBP binding loops; other site 985665001930 ABC-ATPase subunit interface; other site 985665001931 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 985665001932 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 985665001933 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 985665001934 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 985665001935 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 985665001936 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 985665001937 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 985665001938 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 985665001939 phosphopentomutase; Provisional; Region: PRK05362 985665001940 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 985665001941 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 985665001942 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 985665001943 Nucleoside recognition; Region: Gate; pfam07670 985665001944 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 985665001945 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 985665001946 active site 985665001947 catalytic motif [active] 985665001948 Zn binding site [ion binding]; other site 985665001949 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 985665001950 intersubunit interface [polypeptide binding]; other site 985665001951 active site 985665001952 catalytic residue [active] 985665001953 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 985665001954 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 985665001955 DNA binding residues [nucleotide binding] 985665001956 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 985665001957 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 985665001958 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 985665001959 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 985665001960 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 985665001961 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 985665001962 catalytic motif [active] 985665001963 Zn binding site [ion binding]; other site 985665001964 RibD C-terminal domain; Region: RibD_C; cl17279 985665001965 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 985665001966 dimerization interface [polypeptide binding]; other site 985665001967 active site 985665001968 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 985665001969 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 985665001970 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665001971 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985665001972 potential frameshift: common BLAST hit: gi|308070853|ref|YP_003872458.1| HxlR family transcriptional regulator 985665001973 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 985665001974 intracellular protease, PfpI family; Region: PfpI; TIGR01382 985665001975 conserved cys residue [active] 985665001976 Predicted membrane protein [Function unknown]; Region: COG3619 985665001977 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 985665001978 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 985665001979 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665001980 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 985665001981 putative DNA binding site [nucleotide binding]; other site 985665001982 putative Zn2+ binding site [ion binding]; other site 985665001983 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 985665001984 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 985665001985 HlyD family secretion protein; Region: HlyD_3; pfam13437 985665001986 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 985665001987 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 985665001988 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 985665001989 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 985665001990 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 985665001991 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985665001992 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665001993 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985665001994 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 985665001995 N-terminal catalytic domain of SPGH38, a putative alpha-mannosidase of Streptococcus pyogenes, and its prokaryotic homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_SpGH38_like; cd10814 985665001996 active site 985665001997 metal binding site [ion binding]; metal-binding site 985665001998 homodimer interface [polypeptide binding]; other site 985665001999 catalytic site [active] 985665002000 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 985665002001 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 985665002002 Uncharacterized conserved protein [Function unknown]; Region: COG3538 985665002003 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 985665002004 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 985665002005 active site 985665002006 catalytic site [active] 985665002007 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; pfam09261 985665002008 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 985665002009 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 985665002010 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 985665002011 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 985665002012 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665002013 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 985665002014 ABC-ATPase subunit interface; other site 985665002015 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665002016 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 985665002017 dimer interface [polypeptide binding]; other site 985665002018 conserved gate region; other site 985665002019 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 985665002020 ABC-ATPase subunit interface; other site 985665002021 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665002022 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 985665002023 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 985665002024 Response regulator receiver domain; Region: Response_reg; pfam00072 985665002025 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665002026 active site 985665002027 phosphorylation site [posttranslational modification] 985665002028 intermolecular recognition site; other site 985665002029 dimerization interface [polypeptide binding]; other site 985665002030 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665002031 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665002032 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665002033 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 985665002034 dimerization interface [polypeptide binding]; other site 985665002035 Histidine kinase; Region: His_kinase; pfam06580 985665002036 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665002037 ATP binding site [chemical binding]; other site 985665002038 Mg2+ binding site [ion binding]; other site 985665002039 G-X-G motif; other site 985665002040 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 985665002041 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 985665002042 active site 985665002043 LysE type translocator; Region: LysE; cl00565 985665002044 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 985665002045 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 985665002046 non-specific DNA binding site [nucleotide binding]; other site 985665002047 salt bridge; other site 985665002048 sequence-specific DNA binding site [nucleotide binding]; other site 985665002049 Cupin domain; Region: Cupin_2; pfam07883 985665002050 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665002051 sugar efflux transporter; Region: 2A0120; TIGR00899 985665002052 putative substrate translocation pore; other site 985665002053 Pectate lyase; Region: Pec_lyase_C; cl01593 985665002054 putative pectinesterase; Region: PLN02432; cl01911 985665002055 Pectinesterase; Region: Pectinesterase; pfam01095 985665002056 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665002057 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665002058 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665002059 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665002060 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 985665002061 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 985665002062 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985665002063 catalytic residue [active] 985665002064 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665002065 MarR family; Region: MarR_2; cl17246 985665002066 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 985665002067 Low molecular weight phosphatase family; Region: LMWPc; cd00115 985665002068 active site 985665002069 arsenical pump membrane protein; Provisional; Region: PRK15445 985665002070 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 985665002071 transmembrane helices; other site 985665002072 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 985665002073 dimerization interface [polypeptide binding]; other site 985665002074 putative DNA binding site [nucleotide binding]; other site 985665002075 putative Zn2+ binding site [ion binding]; other site 985665002076 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 985665002077 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 985665002078 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 985665002079 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 985665002080 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665002081 Walker A/P-loop; other site 985665002082 ATP binding site [chemical binding]; other site 985665002083 Q-loop/lid; other site 985665002084 ABC transporter signature motif; other site 985665002085 Walker B; other site 985665002086 D-loop; other site 985665002087 H-loop/switch region; other site 985665002088 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 985665002089 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 985665002090 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665002091 Walker A/P-loop; other site 985665002092 ATP binding site [chemical binding]; other site 985665002093 Q-loop/lid; other site 985665002094 ABC transporter signature motif; other site 985665002095 Walker B; other site 985665002096 D-loop; other site 985665002097 H-loop/switch region; other site 985665002098 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 985665002099 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 985665002100 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 985665002101 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 985665002102 dimer interface [polypeptide binding]; other site 985665002103 conserved gate region; other site 985665002104 putative PBP binding loops; other site 985665002105 ABC-ATPase subunit interface; other site 985665002106 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665002107 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 985665002108 dimer interface [polypeptide binding]; other site 985665002109 conserved gate region; other site 985665002110 putative PBP binding loops; other site 985665002111 ABC-ATPase subunit interface; other site 985665002112 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985665002113 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 985665002114 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985665002115 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 985665002116 metal binding site [ion binding]; metal-binding site 985665002117 dimer interface [polypeptide binding]; other site 985665002118 Transcriptional regulators [Transcription]; Region: FadR; COG2186 985665002119 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665002120 DNA-binding site [nucleotide binding]; DNA binding site 985665002121 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 985665002122 Small acid-soluble spore protein H family; Region: SspH; pfam08141 985665002123 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 985665002124 glycosyltransferase, MGT family; Region: MGT; TIGR01426 985665002125 active site 985665002126 TDP-binding site; other site 985665002127 acceptor substrate-binding pocket; other site 985665002128 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 985665002129 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 985665002130 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 985665002131 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 985665002132 active site turn [active] 985665002133 phosphorylation site [posttranslational modification] 985665002134 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665002135 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985665002136 HPr interaction site; other site 985665002137 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665002138 active site 985665002139 phosphorylation site [posttranslational modification] 985665002140 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985665002141 CAT RNA binding domain; Region: CAT_RBD; smart01061 985665002142 PRD domain; Region: PRD; pfam00874 985665002143 PRD domain; Region: PRD; pfam00874 985665002144 potential frameshift: common BLAST hit: gi|116512025|ref|YP_809241.1| Beta-xylosidase 985665002145 potential frameshift: common BLAST hit: gi|170759445|ref|YP_001786584.1| AraC family transcriptional regulator 985665002146 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 985665002147 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665002148 Coenzyme A binding pocket [chemical binding]; other site 985665002149 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 985665002150 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 985665002151 active site 985665002152 active site 985665002153 catalytic residues [active] 985665002154 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 985665002155 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 985665002156 non-specific DNA binding site [nucleotide binding]; other site 985665002157 salt bridge; other site 985665002158 sequence-specific DNA binding site [nucleotide binding]; other site 985665002159 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 985665002160 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985665002161 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 985665002162 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 985665002163 SnoaL-like domain; Region: SnoaL_2; pfam12680 985665002164 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665002165 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665002166 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 985665002167 dimerization interface [polypeptide binding]; other site 985665002168 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985665002169 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 985665002170 non-specific DNA binding site [nucleotide binding]; other site 985665002171 salt bridge; other site 985665002172 sequence-specific DNA binding site [nucleotide binding]; other site 985665002173 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 985665002174 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 985665002175 glutaminase active site [active] 985665002176 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 985665002177 dimer interface [polypeptide binding]; other site 985665002178 active site 985665002179 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 985665002180 dimer interface [polypeptide binding]; other site 985665002181 active site 985665002182 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 985665002183 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 985665002184 active site 985665002185 substrate binding site [chemical binding]; other site 985665002186 metal binding site [ion binding]; metal-binding site 985665002187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 985665002188 YbbR-like protein; Region: YbbR; pfam07949 985665002189 YbbR-like protein; Region: YbbR; pfam07949 985665002190 YbbR-like protein; Region: YbbR; pfam07949 985665002191 Uncharacterized conserved protein [Function unknown]; Region: COG1624 985665002192 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 985665002193 Putative zinc-finger; Region: zf-HC2; pfam13490 985665002194 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 985665002195 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 985665002196 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 985665002197 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665002198 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 985665002199 DNA binding residues [nucleotide binding] 985665002200 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 985665002201 Phosphoenolpyruvate carboxylase; Region: PEPcase; pfam00311 985665002202 potential protein location (hypothetical protein HPL003_03680 [Paenibacillus sp. HPL-003]) that overlaps RNA (tRNA-G) 985665002203 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 985665002204 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 985665002205 Domain of unknown function DUF59; Region: DUF59; pfam01883 985665002206 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 985665002207 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 985665002208 Walker A motif; other site 985665002209 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 985665002210 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 985665002211 active site 985665002212 metal binding site [ion binding]; metal-binding site 985665002213 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 985665002214 ATP-sulfurylase; Region: ATPS; cd00517 985665002215 active site 985665002216 HXXH motif; other site 985665002217 flexible loop; other site 985665002218 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 985665002219 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 985665002220 Active Sites [active] 985665002221 malate dehydrogenase; Provisional; Region: PRK13529 985665002222 Malic enzyme, N-terminal domain; Region: malic; pfam00390 985665002223 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 985665002224 NAD(P) binding site [chemical binding]; other site 985665002225 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 985665002226 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 985665002227 23S rRNA interface [nucleotide binding]; other site 985665002228 L3 interface [polypeptide binding]; other site 985665002229 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 985665002230 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 985665002231 dimerization interface 3.5A [polypeptide binding]; other site 985665002232 active site 985665002233 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 985665002234 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 985665002235 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 985665002236 alphaNTD - beta interaction site [polypeptide binding]; other site 985665002237 alphaNTD homodimer interface [polypeptide binding]; other site 985665002238 alphaNTD - beta' interaction site [polypeptide binding]; other site 985665002239 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 985665002240 30S ribosomal protein S11; Validated; Region: PRK05309 985665002241 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 985665002242 30S ribosomal protein S13; Region: bact_S13; TIGR03631 985665002243 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 985665002244 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 985665002245 rRNA binding site [nucleotide binding]; other site 985665002246 predicted 30S ribosome binding site; other site 985665002247 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 985665002248 RNA binding site [nucleotide binding]; other site 985665002249 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 985665002250 adenylate kinase; Reviewed; Region: adk; PRK00279 985665002251 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 985665002252 AMP-binding site [chemical binding]; other site 985665002253 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 985665002254 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 985665002255 SecY translocase; Region: SecY; pfam00344 985665002256 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 985665002257 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 985665002258 23S rRNA binding site [nucleotide binding]; other site 985665002259 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 985665002260 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 985665002261 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 985665002262 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 985665002263 5S rRNA interface [nucleotide binding]; other site 985665002264 L27 interface [polypeptide binding]; other site 985665002265 23S rRNA interface [nucleotide binding]; other site 985665002266 L5 interface [polypeptide binding]; other site 985665002267 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 985665002268 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 985665002269 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 985665002270 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 985665002271 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 985665002272 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 985665002273 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 985665002274 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 985665002275 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 985665002276 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 985665002277 RNA binding site [nucleotide binding]; other site 985665002278 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 985665002279 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 985665002280 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 985665002281 23S rRNA interface [nucleotide binding]; other site 985665002282 putative translocon interaction site; other site 985665002283 signal recognition particle (SRP54) interaction site; other site 985665002284 L23 interface [polypeptide binding]; other site 985665002285 trigger factor interaction site; other site 985665002286 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 985665002287 23S rRNA interface [nucleotide binding]; other site 985665002288 5S rRNA interface [nucleotide binding]; other site 985665002289 putative antibiotic binding site [chemical binding]; other site 985665002290 L25 interface [polypeptide binding]; other site 985665002291 L27 interface [polypeptide binding]; other site 985665002292 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 985665002293 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 985665002294 G-X-X-G motif; other site 985665002295 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 985665002296 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 985665002297 putative translocon binding site; other site 985665002298 protein-rRNA interface [nucleotide binding]; other site 985665002299 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 985665002300 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 985665002301 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 985665002302 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 985665002303 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 985665002304 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 985665002305 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 985665002306 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 985665002307 elongation factor Tu; Reviewed; Region: PRK00049 985665002308 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 985665002309 G1 box; other site 985665002310 GEF interaction site [polypeptide binding]; other site 985665002311 GTP/Mg2+ binding site [chemical binding]; other site 985665002312 Switch I region; other site 985665002313 G2 box; other site 985665002314 G3 box; other site 985665002315 Switch II region; other site 985665002316 G4 box; other site 985665002317 G5 box; other site 985665002318 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 985665002319 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 985665002320 Antibiotic Binding Site [chemical binding]; other site 985665002321 elongation factor G; Reviewed; Region: PRK00007 985665002322 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 985665002323 G1 box; other site 985665002324 putative GEF interaction site [polypeptide binding]; other site 985665002325 GTP/Mg2+ binding site [chemical binding]; other site 985665002326 Switch I region; other site 985665002327 G2 box; other site 985665002328 G3 box; other site 985665002329 Switch II region; other site 985665002330 G4 box; other site 985665002331 G5 box; other site 985665002332 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 985665002333 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 985665002334 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 985665002335 30S ribosomal protein S7; Validated; Region: PRK05302 985665002336 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 985665002337 S17 interaction site [polypeptide binding]; other site 985665002338 S8 interaction site; other site 985665002339 16S rRNA interaction site [nucleotide binding]; other site 985665002340 streptomycin interaction site [chemical binding]; other site 985665002341 23S rRNA interaction site [nucleotide binding]; other site 985665002342 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 985665002343 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 985665002344 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 985665002345 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 985665002346 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 985665002347 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 985665002348 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 985665002349 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 985665002350 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 985665002351 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 985665002352 G-loop; other site 985665002353 DNA binding site [nucleotide binding] 985665002354 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 985665002355 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 985665002356 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 985665002357 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 985665002358 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 985665002359 RPB10 interaction site [polypeptide binding]; other site 985665002360 RPB1 interaction site [polypeptide binding]; other site 985665002361 RPB11 interaction site [polypeptide binding]; other site 985665002362 RPB3 interaction site [polypeptide binding]; other site 985665002363 RPB12 interaction site [polypeptide binding]; other site 985665002364 Methyltransferase domain; Region: Methyltransf_31; pfam13847 985665002365 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 985665002366 S-adenosylmethionine binding site [chemical binding]; other site 985665002367 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 985665002368 core dimer interface [polypeptide binding]; other site 985665002369 peripheral dimer interface [polypeptide binding]; other site 985665002370 L10 interface [polypeptide binding]; other site 985665002371 L11 interface [polypeptide binding]; other site 985665002372 putative EF-Tu interaction site [polypeptide binding]; other site 985665002373 putative EF-G interaction site [polypeptide binding]; other site 985665002374 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 985665002375 23S rRNA interface [nucleotide binding]; other site 985665002376 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 985665002377 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 985665002378 mRNA/rRNA interface [nucleotide binding]; other site 985665002379 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 985665002380 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 985665002381 23S rRNA interface [nucleotide binding]; other site 985665002382 L7/L12 interface [polypeptide binding]; other site 985665002383 putative thiostrepton binding site; other site 985665002384 L25 interface [polypeptide binding]; other site 985665002385 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 985665002386 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 985665002387 putative homodimer interface [polypeptide binding]; other site 985665002388 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 985665002389 heterodimer interface [polypeptide binding]; other site 985665002390 homodimer interface [polypeptide binding]; other site 985665002391 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 985665002392 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 985665002393 RNA polymerase factor sigma-70; Validated; Region: PRK08295 985665002394 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665002395 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 985665002396 YacP-like NYN domain; Region: NYN_YacP; pfam05991 985665002397 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 985665002398 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 985665002399 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 985665002400 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 985665002401 active site 985665002402 metal binding site [ion binding]; metal-binding site 985665002403 dimerization interface [polypeptide binding]; other site 985665002404 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 985665002405 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 985665002406 active site 985665002407 HIGH motif; other site 985665002408 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 985665002409 KMSKS motif; other site 985665002410 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 985665002411 tRNA binding surface [nucleotide binding]; other site 985665002412 anticodon binding site; other site 985665002413 serine O-acetyltransferase; Region: cysE; TIGR01172 985665002414 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 985665002415 trimer interface [polypeptide binding]; other site 985665002416 active site 985665002417 substrate binding site [chemical binding]; other site 985665002418 CoA binding site [chemical binding]; other site 985665002419 Protein of unknown function (DUF904); Region: DUF904; cl11531 985665002420 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 985665002421 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 985665002422 HIGH motif; other site 985665002423 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 985665002424 active site 985665002425 KMSKS motif; other site 985665002426 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 985665002427 homotrimer interaction site [polypeptide binding]; other site 985665002428 zinc binding site [ion binding]; other site 985665002429 CDP-binding sites; other site 985665002430 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 985665002431 substrate binding site; other site 985665002432 dimer interface; other site 985665002433 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 985665002434 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 985665002435 putative active site [active] 985665002436 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 985665002437 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 985665002438 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 985665002439 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 985665002440 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 985665002441 DNA repair protein RadA; Provisional; Region: PRK11823 985665002442 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 985665002443 Walker A motif/ATP binding site; other site 985665002444 ATP binding site [chemical binding]; other site 985665002445 Walker B motif; other site 985665002446 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 985665002447 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 985665002448 Clp amino terminal domain; Region: Clp_N; pfam02861 985665002449 Clp amino terminal domain; Region: Clp_N; pfam02861 985665002450 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 985665002451 Walker A motif; other site 985665002452 ATP binding site [chemical binding]; other site 985665002453 Walker B motif; other site 985665002454 arginine finger; other site 985665002455 UvrB/uvrC motif; Region: UVR; pfam02151 985665002456 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 985665002457 Walker A motif; other site 985665002458 ATP binding site [chemical binding]; other site 985665002459 Walker B motif; other site 985665002460 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 985665002461 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 985665002462 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 985665002463 ADP binding site [chemical binding]; other site 985665002464 phosphagen binding site; other site 985665002465 substrate specificity loop; other site 985665002466 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 985665002467 UvrB/uvrC motif; Region: UVR; pfam02151 985665002468 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 985665002469 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 985665002470 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 985665002471 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 985665002472 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 985665002473 nucleotide binding pocket [chemical binding]; other site 985665002474 K-X-D-G motif; other site 985665002475 catalytic site [active] 985665002476 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 985665002477 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 985665002478 Dimer interface [polypeptide binding]; other site 985665002479 BRCT sequence motif; other site 985665002480 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 985665002481 Part of AAA domain; Region: AAA_19; pfam13245 985665002482 Family description; Region: UvrD_C_2; pfam13538 985665002483 PcrB family; Region: PcrB; pfam01884 985665002484 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 985665002485 substrate binding site [chemical binding]; other site 985665002486 putative active site [active] 985665002487 dimer interface [polypeptide binding]; other site 985665002488 potential frameshift: common BLAST hit: gi|310644243|ref|YP_003949002.1| glycerophosphoryl diester phosphodiesterase 985665002489 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 985665002490 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 985665002491 Bacterial sugar transferase; Region: Bac_transf; pfam02397 985665002492 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 985665002493 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 985665002494 Probable Catalytic site; other site 985665002495 metal-binding site 985665002496 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 985665002497 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 985665002498 Probable Catalytic site; other site 985665002499 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 985665002500 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 985665002501 NADP binding site [chemical binding]; other site 985665002502 active site 985665002503 putative substrate binding site [chemical binding]; other site 985665002504 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 985665002505 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 985665002506 NAD binding site [chemical binding]; other site 985665002507 substrate binding site [chemical binding]; other site 985665002508 homodimer interface [polypeptide binding]; other site 985665002509 active site 985665002510 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 985665002511 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 985665002512 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 985665002513 substrate binding site; other site 985665002514 tetramer interface; other site 985665002515 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 985665002516 Ligand binding site; other site 985665002517 Putative Catalytic site; other site 985665002518 DXD motif; other site 985665002519 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 985665002520 NADH(P)-binding; Region: NAD_binding_10; pfam13460 985665002521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665002522 NAD(P) binding site [chemical binding]; other site 985665002523 active site 985665002524 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 985665002525 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 985665002526 active site 985665002527 FAD dependent oxidoreductase; Region: DAO; pfam01266 985665002528 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 985665002529 MSEP-CTERM protein; Region: MSEP-CTERM; TIGR04286 985665002530 Acyltransferase family; Region: Acyl_transf_3; pfam01757 985665002531 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 985665002532 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 985665002533 Probable Catalytic site; other site 985665002534 metal-binding site 985665002535 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 985665002536 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665002537 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 985665002538 Methyltransferase domain; Region: Methyltransf_31; pfam13847 985665002539 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 985665002540 S-adenosylmethionine binding site [chemical binding]; other site 985665002541 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 985665002542 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 985665002543 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 985665002544 Walker A/P-loop; other site 985665002545 ATP binding site [chemical binding]; other site 985665002546 Q-loop/lid; other site 985665002547 ABC transporter signature motif; other site 985665002548 Walker B; other site 985665002549 D-loop; other site 985665002550 H-loop/switch region; other site 985665002551 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 985665002552 putative carbohydrate binding site [chemical binding]; other site 985665002553 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 985665002554 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 985665002555 O-Antigen ligase; Region: Wzy_C; pfam04932 985665002556 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 985665002557 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 985665002558 active site 985665002559 tetramer interface; other site 985665002560 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 985665002561 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 985665002562 Peptidase family U32; Region: Peptidase_U32; pfam01136 985665002563 Collagenase; Region: DUF3656; pfam12392 985665002564 Peptidase family U32; Region: Peptidase_U32; cl03113 985665002565 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665002566 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665002567 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 985665002568 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 985665002569 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 985665002570 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 985665002571 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 985665002572 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 985665002573 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 985665002574 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 985665002575 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 985665002576 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 985665002577 excinuclease ABC subunit B; Provisional; Region: PRK05298 985665002578 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 985665002579 ATP binding site [chemical binding]; other site 985665002580 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 985665002581 nucleotide binding region [chemical binding]; other site 985665002582 ATP-binding site [chemical binding]; other site 985665002583 Ultra-violet resistance protein B; Region: UvrB; pfam12344 985665002584 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 985665002585 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 985665002586 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 985665002587 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 985665002588 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 985665002589 ligand binding site [chemical binding]; other site 985665002590 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665002591 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 985665002592 non-specific DNA binding site [nucleotide binding]; other site 985665002593 salt bridge; other site 985665002594 sequence-specific DNA binding site [nucleotide binding]; other site 985665002595 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 985665002596 potential frameshift: common BLAST hit: gi|310644280|ref|YP_003949039.1| DNA-binding protein 985665002597 Glycoside hydrolase family 44; Region: Glyco_hydro_44; pfam12891 985665002598 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 985665002599 Interdomain contacts; other site 985665002600 Cytokine receptor motif; other site 985665002601 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 985665002602 putative metal binding site [ion binding]; other site 985665002603 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 985665002604 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 985665002605 Interdomain contacts; other site 985665002606 Cellulose binding domain; Region: CBM_3; pfam00942 985665002607 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 985665002608 S-adenosylmethionine binding site [chemical binding]; other site 985665002609 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 985665002610 C-terminal peptidase (prc); Region: prc; TIGR00225 985665002611 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 985665002612 protein binding site [polypeptide binding]; other site 985665002613 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 985665002614 Catalytic dyad [active] 985665002615 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 985665002616 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 985665002617 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 985665002618 Peptidase family M23; Region: Peptidase_M23; pfam01551 985665002619 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 985665002620 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 985665002621 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 985665002622 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665002623 Walker A/P-loop; other site 985665002624 ATP binding site [chemical binding]; other site 985665002625 Q-loop/lid; other site 985665002626 ABC transporter signature motif; other site 985665002627 Walker B; other site 985665002628 D-loop; other site 985665002629 H-loop/switch region; other site 985665002630 VanW like protein; Region: VanW; pfam04294 985665002631 G5 domain; Region: G5; pfam07501 985665002632 S-layer homology domain; Region: SLH; pfam00395 985665002633 S-layer homology domain; Region: SLH; pfam00395 985665002634 S-formylglutathione hydrolase; Region: PLN02442 985665002635 Putative esterase; Region: Esterase; pfam00756 985665002636 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 985665002637 Predicted membrane protein [Function unknown]; Region: COG2246 985665002638 GtrA-like protein; Region: GtrA; pfam04138 985665002639 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 985665002640 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 985665002641 Ligand binding site; other site 985665002642 Putative Catalytic site; other site 985665002643 DXD motif; other site 985665002644 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 985665002645 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 985665002646 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 985665002647 DXD motif; other site 985665002648 argininosuccinate lyase; Provisional; Region: PRK00855 985665002649 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 985665002650 active sites [active] 985665002651 tetramer interface [polypeptide binding]; other site 985665002652 argininosuccinate synthase; Provisional; Region: PRK13820 985665002653 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 985665002654 ANP binding site [chemical binding]; other site 985665002655 Substrate Binding Site II [chemical binding]; other site 985665002656 Substrate Binding Site I [chemical binding]; other site 985665002657 ornithine carbamoyltransferase; Provisional; Region: PRK00779 985665002658 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 985665002659 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 985665002660 acetylornithine aminotransferase; Provisional; Region: PRK02627 985665002661 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 985665002662 inhibitor-cofactor binding pocket; inhibition site 985665002663 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665002664 catalytic residue [active] 985665002665 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 985665002666 nucleotide binding site [chemical binding]; other site 985665002667 N-acetyl-L-glutamate binding site [chemical binding]; other site 985665002668 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 985665002669 heterotetramer interface [polypeptide binding]; other site 985665002670 active site pocket [active] 985665002671 cleavage site 985665002672 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 985665002673 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 985665002674 Uncharacterized conserved protein [Function unknown]; Region: COG1284 985665002675 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 985665002676 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 985665002677 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 985665002678 peptide chain release factor 2; Validated; Region: prfB; PRK00578 985665002679 PCRF domain; Region: PCRF; pfam03462 985665002680 RF-1 domain; Region: RF-1; pfam00472 985665002681 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 985665002682 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 985665002683 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 985665002684 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 985665002685 nucleotide binding region [chemical binding]; other site 985665002686 ATP-binding site [chemical binding]; other site 985665002687 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 985665002688 30S subunit binding site; other site 985665002689 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002690 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002691 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002692 Domain of unknown function DUF11; Region: DUF11; cl17728 985665002693 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002694 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002695 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002696 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002697 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002698 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002699 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002700 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002701 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002702 Domain of unknown function DUF11; Region: DUF11; cl17728 985665002703 Domain of unknown function DUF11; Region: DUF11; cl17728 985665002704 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002705 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002706 conserved repeat domain; Region: B_ant_repeat; TIGR01451 985665002707 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 985665002708 DNA-binding site [nucleotide binding]; DNA binding site 985665002709 RNA-binding motif; other site 985665002710 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 985665002711 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 985665002712 Methyltransferase domain; Region: Methyltransf_23; pfam13489 985665002713 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 985665002714 S-adenosylmethionine binding site [chemical binding]; other site 985665002715 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 985665002716 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 985665002717 inhibitor-cofactor binding pocket; inhibition site 985665002718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665002719 catalytic residue [active] 985665002720 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 985665002721 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 985665002722 putative trimer interface [polypeptide binding]; other site 985665002723 putative CoA binding site [chemical binding]; other site 985665002724 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 985665002725 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 985665002726 active site 985665002727 homodimer interface [polypeptide binding]; other site 985665002728 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 985665002729 NeuB family; Region: NeuB; pfam03102 985665002730 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 985665002731 NeuB binding interface [polypeptide binding]; other site 985665002732 putative substrate binding site [chemical binding]; other site 985665002733 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 985665002734 ligand binding site; other site 985665002735 tetramer interface; other site 985665002736 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 985665002737 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 985665002738 NAD(P) binding site [chemical binding]; other site 985665002739 homodimer interface [polypeptide binding]; other site 985665002740 substrate binding site [chemical binding]; other site 985665002741 active site 985665002742 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 985665002743 Flagellar protein FliS; Region: FliS; cl00654 985665002744 flagellar capping protein; Validated; Region: fliD; PRK07737 985665002745 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 985665002746 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 985665002747 FlaG protein; Region: FlaG; pfam03646 985665002748 flagellin; Provisional; Region: PRK12804 985665002749 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 985665002750 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 985665002751 Global regulator protein family; Region: CsrA; pfam02599 985665002752 FliW protein; Region: FliW; cl00740 985665002753 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 985665002754 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 985665002755 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 985665002756 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 985665002757 FlgN protein; Region: FlgN; pfam05130 985665002758 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 985665002759 flagellar operon protein TIGR03826; Region: YvyF 985665002760 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 985665002761 non-specific DNA binding site [nucleotide binding]; other site 985665002762 salt bridge; other site 985665002763 sequence-specific DNA binding site [nucleotide binding]; other site 985665002764 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985665002765 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 985665002766 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985665002767 active site 985665002768 potential frameshift: common BLAST hit: gi|308071113|ref|YP_003872718.1| ComF operon protein 1 985665002769 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985665002770 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665002771 active site 985665002772 phosphorylation site [posttranslational modification] 985665002773 intermolecular recognition site; other site 985665002774 dimerization interface [polypeptide binding]; other site 985665002775 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 985665002776 DNA binding residues [nucleotide binding] 985665002777 dimerization interface [polypeptide binding]; other site 985665002778 Sensor protein DegS; Region: DegS; pfam05384 985665002779 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985665002780 Histidine kinase; Region: HisKA_3; pfam07730 985665002781 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665002782 ATP binding site [chemical binding]; other site 985665002783 Mg2+ binding site [ion binding]; other site 985665002784 G-X-G motif; other site 985665002785 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 985665002786 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665002787 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 985665002788 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 985665002789 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 985665002790 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 985665002791 HlyD family secretion protein; Region: HlyD_3; pfam13437 985665002792 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 985665002793 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665002794 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665002795 S-adenosylmethionine synthetase; Validated; Region: PRK05250 985665002796 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 985665002797 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 985665002798 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 985665002799 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 985665002800 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665002801 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 985665002802 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665002803 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 985665002804 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 985665002805 HlyD family secretion protein; Region: HlyD_3; pfam13437 985665002806 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 985665002807 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 985665002808 S-layer homology domain; Region: SLH; pfam00395 985665002809 S-layer homology domain; Region: SLH; pfam00395 985665002810 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 985665002811 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 985665002812 Mg++ binding site [ion binding]; other site 985665002813 putative catalytic motif [active] 985665002814 substrate binding site [chemical binding]; other site 985665002815 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 985665002816 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 985665002817 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 985665002818 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 985665002819 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 985665002820 active site 985665002821 substrate binding site [chemical binding]; other site 985665002822 metal binding site [ion binding]; metal-binding site 985665002823 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 985665002824 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 985665002825 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 985665002826 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 985665002827 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 985665002828 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 985665002829 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 985665002830 rod shape-determining protein Mbl; Provisional; Region: PRK13928 985665002831 MreB and similar proteins; Region: MreB_like; cd10225 985665002832 nucleotide binding site [chemical binding]; other site 985665002833 Mg binding site [ion binding]; other site 985665002834 putative protofilament interaction site [polypeptide binding]; other site 985665002835 RodZ interaction site [polypeptide binding]; other site 985665002836 Stage III sporulation protein D; Region: SpoIIID; pfam12116 985665002837 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 985665002838 Peptidase family M23; Region: Peptidase_M23; pfam01551 985665002839 Stage II sporulation protein; Region: SpoIID; pfam08486 985665002840 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 985665002841 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 985665002842 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 985665002843 hinge; other site 985665002844 active site 985665002845 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 985665002846 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 985665002847 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 985665002848 gamma subunit interface [polypeptide binding]; other site 985665002849 epsilon subunit interface [polypeptide binding]; other site 985665002850 LBP interface [polypeptide binding]; other site 985665002851 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 985665002852 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 985665002853 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 985665002854 alpha subunit interaction interface [polypeptide binding]; other site 985665002855 Walker A motif; other site 985665002856 ATP binding site [chemical binding]; other site 985665002857 Walker B motif; other site 985665002858 inhibitor binding site; inhibition site 985665002859 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 985665002860 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 985665002861 core domain interface [polypeptide binding]; other site 985665002862 delta subunit interface [polypeptide binding]; other site 985665002863 epsilon subunit interface [polypeptide binding]; other site 985665002864 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 985665002865 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 985665002866 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 985665002867 beta subunit interaction interface [polypeptide binding]; other site 985665002868 Walker A motif; other site 985665002869 ATP binding site [chemical binding]; other site 985665002870 Walker B motif; other site 985665002871 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 985665002872 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 985665002873 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 985665002874 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 985665002875 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 985665002876 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 985665002877 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 985665002878 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 985665002879 ATP synthase I chain; Region: ATP_synt_I; cl09170 985665002880 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 985665002881 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 985665002882 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 985665002883 active site 985665002884 homodimer interface [polypeptide binding]; other site 985665002885 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985665002886 active site 985665002887 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 985665002888 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 985665002889 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 985665002890 dimer interface [polypeptide binding]; other site 985665002891 active site 985665002892 glycine-pyridoxal phosphate binding site [chemical binding]; other site 985665002893 folate binding site [chemical binding]; other site 985665002894 hypothetical protein; Provisional; Region: PRK13690 985665002895 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 985665002896 Low molecular weight phosphatase family; Region: LMWPc; cd00115 985665002897 active site 985665002898 Predicted membrane protein [Function unknown]; Region: COG1971 985665002899 Domain of unknown function DUF; Region: DUF204; pfam02659 985665002900 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 985665002901 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 985665002902 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 985665002903 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 985665002904 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 985665002905 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 985665002906 S-adenosylmethionine binding site [chemical binding]; other site 985665002907 peptide chain release factor 1; Validated; Region: prfA; PRK00591 985665002908 This domain is found in peptide chain release factors; Region: PCRF; smart00937 985665002909 RF-1 domain; Region: RF-1; pfam00472 985665002910 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 985665002911 GTP-binding protein YchF; Reviewed; Region: PRK09601 985665002912 YchF GTPase; Region: YchF; cd01900 985665002913 G1 box; other site 985665002914 GTP/Mg2+ binding site [chemical binding]; other site 985665002915 Switch I region; other site 985665002916 G2 box; other site 985665002917 Switch II region; other site 985665002918 G3 box; other site 985665002919 G4 box; other site 985665002920 G5 box; other site 985665002921 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 985665002922 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 985665002923 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665002924 Coenzyme A binding pocket [chemical binding]; other site 985665002925 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 985665002926 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 985665002927 homotetramer interface [polypeptide binding]; other site 985665002928 FMN binding site [chemical binding]; other site 985665002929 homodimer contacts [polypeptide binding]; other site 985665002930 putative active site [active] 985665002931 putative substrate binding site [chemical binding]; other site 985665002932 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 985665002933 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 985665002934 Protein of unknown function, DUF606; Region: DUF606; pfam04657 985665002935 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 985665002936 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 985665002937 ligand binding site [chemical binding]; other site 985665002938 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 985665002939 Protein of unknown function, DUF606; Region: DUF606; pfam04657 985665002940 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 985665002941 putative active site [active] 985665002942 putative catalytic site [active] 985665002943 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 985665002944 PLD-like domain; Region: PLDc_2; pfam13091 985665002945 putative active site [active] 985665002946 putative catalytic site [active] 985665002947 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 985665002948 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 985665002949 putative active site [active] 985665002950 catalytic site [active] 985665002951 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 985665002952 putative active site [active] 985665002953 catalytic site [active] 985665002954 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665002955 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665002956 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 985665002957 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 985665002958 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 985665002959 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 985665002960 putative substrate binding site [chemical binding]; other site 985665002961 putative ATP binding site [chemical binding]; other site 985665002962 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 985665002963 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 985665002964 AsnC family; Region: AsnC_trans_reg; pfam01037 985665002965 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985665002966 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 985665002967 active site 985665002968 metal binding site [ion binding]; metal-binding site 985665002969 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 985665002970 Lysine efflux permease [General function prediction only]; Region: COG1279 985665002971 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 985665002972 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 985665002973 GTP binding site; other site 985665002974 Bacterial Ig-like domain; Region: Big_5; pfam13205 985665002975 Bacterial Ig-like domain; Region: Big_5; pfam13205 985665002976 S-layer homology domain; Region: SLH; pfam00395 985665002977 S-layer homology domain; Region: SLH; pfam00395 985665002978 S-layer homology domain; Region: SLH; pfam00395 985665002979 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 985665002980 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665002981 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665002982 putative substrate translocation pore; other site 985665002983 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 985665002984 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 985665002985 active site 985665002986 HIGH motif; other site 985665002987 nucleotide binding site [chemical binding]; other site 985665002988 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 985665002989 KMSKS motif; other site 985665002990 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 985665002991 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985665002992 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985665002993 putative acetyltransferase; Provisional; Region: PRK03624 985665002994 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665002995 Coenzyme A binding pocket [chemical binding]; other site 985665002996 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665002997 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665002998 putative substrate translocation pore; other site 985665002999 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 985665003000 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 985665003001 putative [4Fe-4S] binding site [ion binding]; other site 985665003002 putative molybdopterin cofactor binding site [chemical binding]; other site 985665003003 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 985665003004 putative molybdopterin cofactor binding site; other site 985665003005 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 985665003006 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 985665003007 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665003008 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 985665003009 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 985665003010 catalytic residues [active] 985665003011 dimer interface [polypeptide binding]; other site 985665003012 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 985665003013 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 985665003014 Walker A/P-loop; other site 985665003015 ATP binding site [chemical binding]; other site 985665003016 Q-loop/lid; other site 985665003017 ABC transporter signature motif; other site 985665003018 Walker B; other site 985665003019 D-loop; other site 985665003020 H-loop/switch region; other site 985665003021 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 985665003022 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 985665003023 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 985665003024 Domain of unknown function DUF20; Region: UPF0118; pfam01594 985665003025 Transcriptional regulator [Transcription]; Region: LytR; COG1316 985665003026 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 985665003027 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 985665003028 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 985665003029 DEAD-like helicases superfamily; Region: DEXDc; smart00487 985665003030 ATP binding site [chemical binding]; other site 985665003031 Mg++ binding site [ion binding]; other site 985665003032 motif III; other site 985665003033 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 985665003034 nucleotide binding region [chemical binding]; other site 985665003035 ATP-binding site [chemical binding]; other site 985665003036 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 985665003037 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665003038 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665003039 WHG domain; Region: WHG; pfam13305 985665003040 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 985665003041 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 985665003042 Predicted peptidase [General function prediction only]; Region: COG4099 985665003043 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 985665003044 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 985665003045 non-specific DNA binding site [nucleotide binding]; other site 985665003046 salt bridge; other site 985665003047 sequence-specific DNA binding site [nucleotide binding]; other site 985665003048 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 985665003049 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 985665003050 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 985665003051 substrate binding pocket [chemical binding]; other site 985665003052 membrane-bound complex binding site; other site 985665003053 hinge residues; other site 985665003054 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985665003055 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 985665003056 Walker A/P-loop; other site 985665003057 ATP binding site [chemical binding]; other site 985665003058 Q-loop/lid; other site 985665003059 ABC transporter signature motif; other site 985665003060 Walker B; other site 985665003061 D-loop; other site 985665003062 H-loop/switch region; other site 985665003063 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 985665003064 dimer interface [polypeptide binding]; other site 985665003065 conserved gate region; other site 985665003066 ABC-ATPase subunit interface; other site 985665003067 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 985665003068 dimer interface [polypeptide binding]; other site 985665003069 conserved gate region; other site 985665003070 putative PBP binding loops; other site 985665003071 ABC-ATPase subunit interface; other site 985665003072 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 985665003073 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 985665003074 Sulfate transporter family; Region: Sulfate_transp; pfam00916 985665003075 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 985665003076 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 985665003077 oligomeric interface; other site 985665003078 putative active site [active] 985665003079 homodimer interface [polypeptide binding]; other site 985665003080 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 985665003081 ABC1 family; Region: ABC1; pfam03109 985665003082 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 985665003083 active site 985665003084 ATP binding site [chemical binding]; other site 985665003085 Uncharacterized conserved protein [Function unknown]; Region: COG3937 985665003086 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 985665003087 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 985665003088 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 985665003089 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 985665003090 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 985665003091 catalytic triad [active] 985665003092 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 985665003093 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 985665003094 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 985665003095 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 985665003096 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 985665003097 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 985665003098 active site 985665003099 SAM binding site [chemical binding]; other site 985665003100 homodimer interface [polypeptide binding]; other site 985665003101 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 985665003102 active site 985665003103 SAM binding site [chemical binding]; other site 985665003104 homodimer interface [polypeptide binding]; other site 985665003105 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 985665003106 active site 985665003107 putative homodimer interface [polypeptide binding]; other site 985665003108 SAM binding site [chemical binding]; other site 985665003109 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 985665003110 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 985665003111 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 985665003112 Precorrin-8X methylmutase; Region: CbiC; pfam02570 985665003113 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 985665003114 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 985665003115 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 985665003116 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 985665003117 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 985665003118 putative active site [active] 985665003119 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 985665003120 putative active site [active] 985665003121 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 985665003122 active site 985665003123 SAM binding site [chemical binding]; other site 985665003124 homodimer interface [polypeptide binding]; other site 985665003125 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 985665003126 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 985665003127 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 985665003128 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 985665003129 active site 985665003130 Spore germination protein; Region: Spore_permease; cl17796 985665003131 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 985665003132 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 985665003133 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 985665003134 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 985665003135 Transposase; Region: HTH_Tnp_1; pfam01527 985665003136 HTH-like domain; Region: HTH_21; pfam13276 985665003137 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 985665003138 Integrase core domain; Region: rve; pfam00665 985665003139 Integrase core domain; Region: rve_3; pfam13683 985665003140 Pirin-related protein [General function prediction only]; Region: COG1741 985665003141 Pirin; Region: Pirin; pfam02678 985665003142 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 985665003143 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665003144 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665003145 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 985665003146 putative dimerization interface [polypeptide binding]; other site 985665003147 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 985665003148 EamA-like transporter family; Region: EamA; pfam00892 985665003149 Cache domain; Region: Cache_1; pfam02743 985665003150 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 985665003151 dimerization interface [polypeptide binding]; other site 985665003152 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665003153 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665003154 dimer interface [polypeptide binding]; other site 985665003155 putative CheW interface [polypeptide binding]; other site 985665003156 Predicted membrane protein [Function unknown]; Region: COG2259 985665003157 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 985665003158 Penicillinase repressor; Region: Pencillinase_R; pfam03965 985665003159 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665003160 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 985665003161 DNA binding site [nucleotide binding] 985665003162 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 985665003163 metal binding site 2 [ion binding]; metal-binding site 985665003164 putative DNA binding helix; other site 985665003165 metal binding site 1 [ion binding]; metal-binding site 985665003166 dimer interface [polypeptide binding]; other site 985665003167 structural Zn2+ binding site [ion binding]; other site 985665003168 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 985665003169 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 985665003170 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 985665003171 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 985665003172 metal binding site [ion binding]; metal-binding site 985665003173 active site 985665003174 I-site; other site 985665003175 Transcriptional regulator; Region: Rrf2; pfam02082 985665003176 Rrf2 family protein; Region: rrf2_super; TIGR00738 985665003177 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 985665003178 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 985665003179 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 985665003180 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 985665003181 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 985665003182 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 985665003183 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK14704 985665003184 Class III ribonucleotide reductase; Region: RNR_III; cd01675 985665003185 effector binding site; other site 985665003186 active site 985665003187 Zn binding site [ion binding]; other site 985665003188 glycine loop; other site 985665003189 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 985665003190 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 985665003191 FeS/SAM binding site; other site 985665003192 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 985665003193 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 985665003194 THF binding site; other site 985665003195 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 985665003196 substrate binding site [chemical binding]; other site 985665003197 THF binding site; other site 985665003198 zinc-binding site [ion binding]; other site 985665003199 Predicted transcriptional regulators [Transcription]; Region: COG1695 985665003200 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 985665003201 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 985665003202 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 985665003203 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 985665003204 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 985665003205 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 985665003206 classical (c) SDRs; Region: SDR_c; cd05233 985665003207 NAD(P) binding site [chemical binding]; other site 985665003208 active site 985665003209 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 985665003210 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 985665003211 HTH domain; Region: HTH_11; cl17392 985665003212 Nitric oxide synthase (NOS) produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N(omega)-hydroxy-L-arginine (NHA) as an...; Region: NOS_oxygenase; cd00575 985665003213 active site 985665003214 dimer interface [polypeptide binding]; other site 985665003215 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 985665003216 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 985665003217 dimerization interface [polypeptide binding]; other site 985665003218 DPS ferroxidase diiron center [ion binding]; other site 985665003219 ion pore; other site 985665003220 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985665003221 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 985665003222 metal binding site [ion binding]; metal-binding site 985665003223 dimer interface [polypeptide binding]; other site 985665003224 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 985665003225 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 985665003226 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 985665003227 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 985665003228 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 985665003229 active site 985665003230 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 985665003231 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 985665003232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665003233 Walker A/P-loop; other site 985665003234 ATP binding site [chemical binding]; other site 985665003235 Q-loop/lid; other site 985665003236 ABC transporter signature motif; other site 985665003237 Walker B; other site 985665003238 D-loop; other site 985665003239 H-loop/switch region; other site 985665003240 TOBE domain; Region: TOBE_2; pfam08402 985665003241 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 985665003242 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 985665003243 dimer interface [polypeptide binding]; other site 985665003244 conserved gate region; other site 985665003245 putative PBP binding loops; other site 985665003246 ABC-ATPase subunit interface; other site 985665003247 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 985665003248 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 985665003249 dimer interface [polypeptide binding]; other site 985665003250 conserved gate region; other site 985665003251 putative PBP binding loops; other site 985665003252 ABC-ATPase subunit interface; other site 985665003253 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 985665003254 active site 985665003255 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 985665003256 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 985665003257 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 985665003258 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 985665003259 nucleophilic elbow; other site 985665003260 nucleophilic elbow; other site 985665003261 catalytic triad; other site 985665003262 catalytic triad; other site 985665003263 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 985665003264 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 985665003265 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 985665003266 FOG: WD40 repeat [General function prediction only]; Region: COG2319 985665003267 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 985665003268 structural tetrad; other site 985665003269 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 985665003270 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 985665003271 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 985665003272 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 985665003273 NlpC/P60 family; Region: NLPC_P60; cl17555 985665003274 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 985665003275 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 985665003276 active site 985665003277 dimerization interface [polypeptide binding]; other site 985665003278 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665003279 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 985665003280 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 985665003281 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 985665003282 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665003283 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 985665003284 putative DNA binding site [nucleotide binding]; other site 985665003285 putative Zn2+ binding site [ion binding]; other site 985665003286 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 985665003287 DEAD_2; Region: DEAD_2; pfam06733 985665003288 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 985665003289 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 985665003290 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 985665003291 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 985665003292 metal binding site [ion binding]; metal-binding site 985665003293 active site 985665003294 I-site; other site 985665003295 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665003296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665003297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665003298 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 985665003299 putative dimerization interface [polypeptide binding]; other site 985665003300 holin-like protein; Validated; Region: PRK01658 985665003301 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 985665003302 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 985665003303 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 985665003304 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 985665003305 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 985665003306 substrate binding pocket [chemical binding]; other site 985665003307 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 985665003308 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 985665003309 NADH(P)-binding; Region: NAD_binding_10; pfam13460 985665003310 NAD binding site [chemical binding]; other site 985665003311 substrate binding site [chemical binding]; other site 985665003312 putative active site [active] 985665003313 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 985665003314 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 985665003315 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985665003316 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 985665003317 H+ Antiporter protein; Region: 2A0121; TIGR00900 985665003318 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665003319 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 985665003320 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665003321 DNA binding site [nucleotide binding] 985665003322 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 985665003323 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665003324 putative substrate translocation pore; other site 985665003325 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 985665003326 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 985665003327 NADP binding site [chemical binding]; other site 985665003328 homodimer interface [polypeptide binding]; other site 985665003329 active site 985665003330 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 985665003331 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 985665003332 active site 985665003333 intersubunit interface [polypeptide binding]; other site 985665003334 catalytic residue [active] 985665003335 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 985665003336 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 985665003337 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 985665003338 substrate binding site [chemical binding]; other site 985665003339 ATP binding site [chemical binding]; other site 985665003340 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665003341 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665003342 DNA binding site [nucleotide binding] 985665003343 domain linker motif; other site 985665003344 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 985665003345 putative dimerization interface [polypeptide binding]; other site 985665003346 putative ligand binding site [chemical binding]; other site 985665003347 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 985665003348 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 985665003349 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 985665003350 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 985665003351 NAD(P) binding site [chemical binding]; other site 985665003352 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 985665003353 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665003354 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 985665003355 DNA binding residues [nucleotide binding] 985665003356 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 985665003357 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665003358 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 985665003359 putative PBP binding loops; other site 985665003360 dimer interface [polypeptide binding]; other site 985665003361 ABC-ATPase subunit interface; other site 985665003362 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 985665003363 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 985665003364 dimer interface [polypeptide binding]; other site 985665003365 conserved gate region; other site 985665003366 putative PBP binding loops; other site 985665003367 ABC-ATPase subunit interface; other site 985665003368 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665003369 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665003370 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 985665003371 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 985665003372 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 985665003373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665003374 Walker A/P-loop; other site 985665003375 ATP binding site [chemical binding]; other site 985665003376 Q-loop/lid; other site 985665003377 ABC transporter signature motif; other site 985665003378 Walker B; other site 985665003379 D-loop; other site 985665003380 H-loop/switch region; other site 985665003381 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 985665003382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665003383 Walker A/P-loop; other site 985665003384 ATP binding site [chemical binding]; other site 985665003385 Q-loop/lid; other site 985665003386 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665003387 ABC transporter signature motif; other site 985665003388 Walker B; other site 985665003389 ABC transporter; Region: ABC_tran_2; pfam12848 985665003390 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665003391 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 985665003392 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665003393 putative substrate translocation pore; other site 985665003394 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 985665003395 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 985665003396 Domain of unknown function (DUF377); Region: DUF377; pfam04041 985665003397 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 985665003398 active site 985665003399 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665003400 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 985665003401 dimer interface [polypeptide binding]; other site 985665003402 conserved gate region; other site 985665003403 putative PBP binding loops; other site 985665003404 ABC-ATPase subunit interface; other site 985665003405 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 985665003406 dimer interface [polypeptide binding]; other site 985665003407 conserved gate region; other site 985665003408 putative PBP binding loops; other site 985665003409 ABC-ATPase subunit interface; other site 985665003410 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665003411 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665003412 dimerization interface [polypeptide binding]; other site 985665003413 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 985665003414 putative active cleft [active] 985665003415 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 985665003416 active site 985665003417 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665003418 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665003419 DNA binding site [nucleotide binding] 985665003420 domain linker motif; other site 985665003421 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_1; cd06277 985665003422 putative dimerization interface [polypeptide binding]; other site 985665003423 putative ligand binding site [chemical binding]; other site 985665003424 Cold-inducible protein YdjO; Region: YdjO; pfam14169 985665003425 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 985665003426 DNA-binding site [nucleotide binding]; DNA binding site 985665003427 RNA-binding motif; other site 985665003428 hypothetical protein; Provisional; Region: PRK04164 985665003429 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 985665003430 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665003431 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665003432 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 985665003433 Uncharacterized conserved protein [Function unknown]; Region: COG2427 985665003434 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 985665003435 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 985665003436 active site 985665003437 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 985665003438 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 985665003439 active site 985665003440 Na/Ca binding site [ion binding]; other site 985665003441 catalytic site [active] 985665003442 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 985665003443 catalytic core [active] 985665003444 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 985665003445 Bax inhibitor 1 like; Region: BaxI_1; cl17691 985665003446 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 985665003447 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 985665003448 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 985665003449 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 985665003450 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 985665003451 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665003452 DNA binding site [nucleotide binding] 985665003453 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 985665003454 putative dimerization interface [polypeptide binding]; other site 985665003455 putative ligand binding site [chemical binding]; other site 985665003456 peptidase T; Region: peptidase-T; TIGR01882 985665003457 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 985665003458 metal binding site [ion binding]; metal-binding site 985665003459 dimer interface [polypeptide binding]; other site 985665003460 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665003461 dimer interface [polypeptide binding]; other site 985665003462 putative CheW interface [polypeptide binding]; other site 985665003463 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 985665003464 active site 985665003465 dimer interface [polypeptide binding]; other site 985665003466 magnesium binding site [ion binding]; other site 985665003467 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985665003468 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 985665003469 tetramer interface [polypeptide binding]; other site 985665003470 active site 985665003471 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 985665003472 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 985665003473 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 985665003474 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665003475 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 985665003476 dimer interface [polypeptide binding]; other site 985665003477 conserved gate region; other site 985665003478 ABC-ATPase subunit interface; other site 985665003479 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665003480 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 985665003481 dimer interface [polypeptide binding]; other site 985665003482 conserved gate region; other site 985665003483 ABC-ATPase subunit interface; other site 985665003484 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665003485 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665003486 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665003487 HAMP domain; Region: HAMP; pfam00672 985665003488 dimerization interface [polypeptide binding]; other site 985665003489 Histidine kinase; Region: His_kinase; pfam06580 985665003490 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665003491 ATP binding site [chemical binding]; other site 985665003492 Mg2+ binding site [ion binding]; other site 985665003493 G-X-G motif; other site 985665003494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665003495 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 985665003496 active site 985665003497 phosphorylation site [posttranslational modification] 985665003498 intermolecular recognition site; other site 985665003499 dimerization interface [polypeptide binding]; other site 985665003500 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665003501 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 985665003502 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 985665003503 putative active site [active] 985665003504 catalytic triad [active] 985665003505 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 985665003506 putative integrin binding motif; other site 985665003507 PA/protease domain interface [polypeptide binding]; other site 985665003508 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 985665003509 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 985665003510 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 985665003511 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 985665003512 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 985665003513 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 985665003514 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 985665003515 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 985665003516 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 985665003517 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 985665003518 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 985665003519 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 985665003520 S-layer homology domain; Region: SLH; pfam00395 985665003521 Methyltransferase domain; Region: Methyltransf_31; pfam13847 985665003522 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 985665003523 S-adenosylmethionine binding site [chemical binding]; other site 985665003524 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 985665003525 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 985665003526 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 985665003527 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 985665003528 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 985665003529 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665003530 Rubredoxin [Energy production and conversion]; Region: COG1773 985665003531 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 985665003532 iron binding site [ion binding]; other site 985665003533 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 985665003534 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 985665003535 ligand binding site [chemical binding]; other site 985665003536 flexible hinge region; other site 985665003537 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 985665003538 putative switch regulator; other site 985665003539 non-specific DNA interactions [nucleotide binding]; other site 985665003540 DNA binding site [nucleotide binding] 985665003541 sequence specific DNA binding site [nucleotide binding]; other site 985665003542 putative cAMP binding site [chemical binding]; other site 985665003543 Predicted integral membrane protein [Function unknown]; Region: COG5542 985665003544 Condensation domain; Region: Condensation; pfam00668 985665003545 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665003546 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665003547 acyl-activating enzyme (AAE) consensus motif; other site 985665003548 AMP binding site [chemical binding]; other site 985665003549 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665003550 Condensation domain; Region: Condensation; pfam00668 985665003551 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665003552 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 985665003553 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665003554 acyl-activating enzyme (AAE) consensus motif; other site 985665003555 AMP binding site [chemical binding]; other site 985665003556 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665003557 Condensation domain; Region: Condensation; pfam00668 985665003558 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665003559 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 985665003560 Condensation domain; Region: Condensation; pfam00668 985665003561 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665003562 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665003563 acyl-activating enzyme (AAE) consensus motif; other site 985665003564 AMP binding site [chemical binding]; other site 985665003565 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665003566 Condensation domain; Region: Condensation; pfam00668 985665003567 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665003568 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 985665003569 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665003570 acyl-activating enzyme (AAE) consensus motif; other site 985665003571 AMP binding site [chemical binding]; other site 985665003572 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665003573 Condensation domain; Region: Condensation; pfam00668 985665003574 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 985665003575 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 985665003576 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 985665003577 acyl-activating enzyme (AAE) consensus motif; other site 985665003578 AMP binding site [chemical binding]; other site 985665003579 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665003580 Condensation domain; Region: Condensation; pfam00668 985665003581 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665003582 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 985665003583 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665003584 acyl-activating enzyme (AAE) consensus motif; other site 985665003585 AMP binding site [chemical binding]; other site 985665003586 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665003587 Condensation domain; Region: Condensation; pfam00668 985665003588 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 985665003589 H+ Antiporter protein; Region: 2A0121; TIGR00900 985665003590 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665003591 putative substrate translocation pore; other site 985665003592 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665003593 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665003594 active site 985665003595 phosphorylation site [posttranslational modification] 985665003596 intermolecular recognition site; other site 985665003597 dimerization interface [polypeptide binding]; other site 985665003598 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 985665003599 DNA binding site [nucleotide binding] 985665003600 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665003601 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665003602 ATP binding site [chemical binding]; other site 985665003603 Mg2+ binding site [ion binding]; other site 985665003604 G-X-G motif; other site 985665003605 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 985665003606 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 985665003607 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985665003608 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 985665003609 Walker A/P-loop; other site 985665003610 ATP binding site [chemical binding]; other site 985665003611 Q-loop/lid; other site 985665003612 ABC transporter signature motif; other site 985665003613 Walker B; other site 985665003614 D-loop; other site 985665003615 H-loop/switch region; other site 985665003616 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 985665003617 potential frameshift: common BLAST hit: gi|294500728|ref|YP_003564428.1| amino acid carrier protein 985665003618 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 985665003619 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 985665003620 Walker A/P-loop; other site 985665003621 ATP binding site [chemical binding]; other site 985665003622 Q-loop/lid; other site 985665003623 ABC transporter signature motif; other site 985665003624 Walker B; other site 985665003625 D-loop; other site 985665003626 H-loop/switch region; other site 985665003627 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 985665003628 hypothetical protein; Provisional; Region: PRK08204 985665003629 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 985665003630 active site 985665003631 Beta-lactamase; Region: Beta-lactamase; pfam00144 985665003632 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 985665003633 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 985665003634 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 985665003635 putative DNA binding site [nucleotide binding]; other site 985665003636 putative Zn2+ binding site [ion binding]; other site 985665003637 AsnC family; Region: AsnC_trans_reg; pfam01037 985665003638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665003639 short chain dehydrogenase; Provisional; Region: PRK07041 985665003640 NAD(P) binding site [chemical binding]; other site 985665003641 active site 985665003642 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665003643 Helix-turn-helix domain; Region: HTH_18; pfam12833 985665003644 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665003645 Glycosyl hydrolase family 52; Region: Glyco_hydro_52; pfam03512 985665003646 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 985665003647 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 985665003648 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 985665003649 Glycosyl hydrolase family 14; Region: Glyco_hydro_14; pfam01373 985665003650 Carbohydrate binding domain (family 25); Region: CBM_25; pfam03423 985665003651 Carbohydrate binding domain (family 25); Region: CBM_25; pfam03423 985665003652 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 985665003653 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 985665003654 active site 985665003655 catalytic site [active] 985665003656 Aamy_C domain; Region: Aamy_C; smart00632 985665003657 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985665003658 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 985665003659 active site 985665003660 FMN binding site [chemical binding]; other site 985665003661 substrate binding site [chemical binding]; other site 985665003662 homotetramer interface [polypeptide binding]; other site 985665003663 catalytic residue [active] 985665003664 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665003665 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 985665003666 Response regulator receiver domain; Region: Response_reg; pfam00072 985665003667 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665003668 active site 985665003669 phosphorylation site [posttranslational modification] 985665003670 intermolecular recognition site; other site 985665003671 dimerization interface [polypeptide binding]; other site 985665003672 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665003673 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665003674 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665003675 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 985665003676 dimerization interface [polypeptide binding]; other site 985665003677 Histidine kinase; Region: His_kinase; pfam06580 985665003678 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665003679 ATP binding site [chemical binding]; other site 985665003680 Mg2+ binding site [ion binding]; other site 985665003681 G-X-G motif; other site 985665003682 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 985665003683 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 985665003684 dimer interface [polypeptide binding]; other site 985665003685 conserved gate region; other site 985665003686 putative PBP binding loops; other site 985665003687 ABC-ATPase subunit interface; other site 985665003688 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665003689 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 985665003690 dimer interface [polypeptide binding]; other site 985665003691 conserved gate region; other site 985665003692 putative PBP binding loops; other site 985665003693 ABC-ATPase subunit interface; other site 985665003694 CHASE3 domain; Region: CHASE3; cl05000 985665003695 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 985665003696 HAMP domain; Region: HAMP; pfam00672 985665003697 dimerization interface [polypeptide binding]; other site 985665003698 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665003699 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665003700 dimer interface [polypeptide binding]; other site 985665003701 putative CheW interface [polypeptide binding]; other site 985665003702 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 985665003703 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 985665003704 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 985665003705 Right handed beta helix region; Region: Beta_helix; pfam13229 985665003706 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 985665003707 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665003708 putative substrate translocation pore; other site 985665003709 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 985665003710 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 985665003711 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 985665003712 NodB motif; other site 985665003713 active site 985665003714 catalytic site [active] 985665003715 Zn binding site [ion binding]; other site 985665003716 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 985665003717 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 985665003718 catalytic triad [active] 985665003719 catalytic triad [active] 985665003720 oxyanion hole [active] 985665003721 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 985665003722 putative substrate binding site 1 [chemical binding]; other site 985665003723 Na binding site 1 [ion binding]; other site 985665003724 putative substrate binding site 2 [chemical binding]; other site 985665003725 Na2 binding site [ion binding]; other site 985665003726 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 985665003727 linker region; other site 985665003728 YL1 nuclear protein; Region: YL1; pfam05764 985665003729 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 985665003730 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 985665003731 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 985665003732 intersubunit interface [polypeptide binding]; other site 985665003733 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 985665003734 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 985665003735 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 985665003736 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 985665003737 seryl-tRNA synthetase; Provisional; Region: PRK05431 985665003738 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 985665003739 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 985665003740 dimer interface [polypeptide binding]; other site 985665003741 active site 985665003742 motif 1; other site 985665003743 motif 2; other site 985665003744 motif 3; other site 985665003745 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 985665003746 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 985665003747 heme-binding site [chemical binding]; other site 985665003748 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 985665003749 FAD binding pocket [chemical binding]; other site 985665003750 FAD binding motif [chemical binding]; other site 985665003751 phosphate binding motif [ion binding]; other site 985665003752 beta-alpha-beta structure motif; other site 985665003753 NAD binding pocket [chemical binding]; other site 985665003754 Heme binding pocket [chemical binding]; other site 985665003755 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 985665003756 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 985665003757 active site 985665003758 motif I; other site 985665003759 motif II; other site 985665003760 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 985665003761 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 985665003762 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 985665003763 AP (apurinic/apyrimidinic) site pocket; other site 985665003764 DNA interaction; other site 985665003765 Metal-binding active site; metal-binding site 985665003766 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 985665003767 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665003768 Walker A/P-loop; other site 985665003769 ATP binding site [chemical binding]; other site 985665003770 Q-loop/lid; other site 985665003771 ABC transporter signature motif; other site 985665003772 Walker B; other site 985665003773 D-loop; other site 985665003774 H-loop/switch region; other site 985665003775 TOBE domain; Region: TOBE_2; pfam08402 985665003776 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 985665003777 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 985665003778 dimer interface [polypeptide binding]; other site 985665003779 conserved gate region; other site 985665003780 putative PBP binding loops; other site 985665003781 ABC-ATPase subunit interface; other site 985665003782 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 985665003783 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 985665003784 dimer interface [polypeptide binding]; other site 985665003785 conserved gate region; other site 985665003786 putative PBP binding loops; other site 985665003787 ABC-ATPase subunit interface; other site 985665003788 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 985665003789 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 985665003790 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 985665003791 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 985665003792 active site 985665003793 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 985665003794 sugar binding site [chemical binding]; other site 985665003795 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 985665003796 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 985665003797 active site 985665003798 FMN binding site [chemical binding]; other site 985665003799 substrate binding site [chemical binding]; other site 985665003800 putative catalytic residue [active] 985665003801 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665003802 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 985665003803 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665003804 putative substrate translocation pore; other site 985665003805 Predicted transcriptional regulators [Transcription]; Region: COG1695 985665003806 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 985665003807 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 985665003808 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 985665003809 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665003810 DNA-binding site [nucleotide binding]; DNA binding site 985665003811 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 985665003812 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 985665003813 beta-galactosidase; Region: BGL; TIGR03356 985665003814 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 985665003815 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 985665003816 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 985665003817 active site 985665003818 methionine cluster; other site 985665003819 phosphorylation site [posttranslational modification] 985665003820 metal binding site [ion binding]; metal-binding site 985665003821 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 985665003822 active site 985665003823 P-loop; other site 985665003824 phosphorylation site [posttranslational modification] 985665003825 Helix-turn-helix domain; Region: HTH_18; pfam12833 985665003826 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 985665003827 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 985665003828 active site 985665003829 homodimer interface [polypeptide binding]; other site 985665003830 catalytic site [active] 985665003831 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 985665003832 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 985665003833 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665003834 putative substrate translocation pore; other site 985665003835 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665003836 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665003837 DNA binding site [nucleotide binding] 985665003838 domain linker motif; other site 985665003839 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 985665003840 dimerization interface [polypeptide binding]; other site 985665003841 ligand binding site [chemical binding]; other site 985665003842 sodium binding site [ion binding]; other site 985665003843 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665003844 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665003845 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 985665003846 dimer interface [polypeptide binding]; other site 985665003847 conserved gate region; other site 985665003848 putative PBP binding loops; other site 985665003849 ABC-ATPase subunit interface; other site 985665003850 PilZ domain; Region: PilZ; pfam07238 985665003851 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 985665003852 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665003853 Zn2+ binding site [ion binding]; other site 985665003854 Mg2+ binding site [ion binding]; other site 985665003855 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 985665003856 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 985665003857 Phage integrase family; Region: Phage_integrase; pfam00589 985665003858 active site 985665003859 DNA binding site [nucleotide binding] 985665003860 Int/Topo IB signature motif; other site 985665003861 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 985665003862 Domain of unknown function (DUF4120); Region: DUF4120; pfam13496 985665003863 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665003864 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665003865 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 985665003866 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665003867 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 985665003868 Transposase; Region: HTH_Tnp_1; pfam01527 985665003869 HTH-like domain; Region: HTH_21; pfam13276 985665003870 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 985665003871 Integrase core domain; Region: rve; pfam00665 985665003872 Integrase core domain; Region: rve_3; pfam13683 985665003873 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665003874 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 985665003875 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 985665003876 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 985665003877 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 985665003878 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 985665003879 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 985665003880 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 985665003881 non-specific DNA binding site [nucleotide binding]; other site 985665003882 salt bridge; other site 985665003883 sequence-specific DNA binding site [nucleotide binding]; other site 985665003884 Apoptosis regulator proteins of the Bcl-2 family, named after B-cell lymphoma 2. This alignment model spans what have been described as Bcl-2 homology regions BH1, BH2, BH3, and BH4. Many members of this family have an additional C-terminal transmembrane...; Region: Bcl-2_like; cl02575 985665003885 BH3-homology region binding site; other site 985665003886 BH1; other site 985665003887 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 985665003888 active site 985665003889 homodimer interface [polypeptide binding]; other site 985665003890 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 985665003891 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985665003892 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 985665003893 Walker A/P-loop; other site 985665003894 ATP binding site [chemical binding]; other site 985665003895 Q-loop/lid; other site 985665003896 ABC transporter signature motif; other site 985665003897 Walker B; other site 985665003898 D-loop; other site 985665003899 H-loop/switch region; other site 985665003900 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 985665003901 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 985665003902 dimer interface [polypeptide binding]; other site 985665003903 conserved gate region; other site 985665003904 putative PBP binding loops; other site 985665003905 ABC-ATPase subunit interface; other site 985665003906 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 985665003907 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 985665003908 substrate binding pocket [chemical binding]; other site 985665003909 membrane-bound complex binding site; other site 985665003910 hinge residues; other site 985665003911 nickel import ATP-binding protein NikE; Region: nickel_nikE; TIGR02769 985665003912 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665003913 Walker A/P-loop; other site 985665003914 ATP binding site [chemical binding]; other site 985665003915 Q-loop/lid; other site 985665003916 ABC transporter signature motif; other site 985665003917 Walker B; other site 985665003918 D-loop; other site 985665003919 H-loop/switch region; other site 985665003920 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665003921 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 985665003922 Walker A/P-loop; other site 985665003923 ATP binding site [chemical binding]; other site 985665003924 Q-loop/lid; other site 985665003925 ABC transporter signature motif; other site 985665003926 Walker B; other site 985665003927 D-loop; other site 985665003928 H-loop/switch region; other site 985665003929 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985665003930 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 985665003931 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 985665003932 dimer interface [polypeptide binding]; other site 985665003933 conserved gate region; other site 985665003934 putative PBP binding loops; other site 985665003935 ABC-ATPase subunit interface; other site 985665003936 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 985665003937 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 985665003938 dimer interface [polypeptide binding]; other site 985665003939 conserved gate region; other site 985665003940 putative PBP binding loops; other site 985665003941 ABC-ATPase subunit interface; other site 985665003942 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985665003943 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 985665003944 substrate binding site [chemical binding]; other site 985665003945 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985665003946 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665003947 Walker A/P-loop; other site 985665003948 ATP binding site [chemical binding]; other site 985665003949 Q-loop/lid; other site 985665003950 ABC transporter signature motif; other site 985665003951 Walker B; other site 985665003952 D-loop; other site 985665003953 H-loop/switch region; other site 985665003954 ATP synthase subunit C; Region: ATP-synt_C; cl00466 985665003955 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665003956 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985665003957 Walker A/P-loop; other site 985665003958 ATP binding site [chemical binding]; other site 985665003959 Q-loop/lid; other site 985665003960 ABC transporter signature motif; other site 985665003961 Walker B; other site 985665003962 D-loop; other site 985665003963 H-loop/switch region; other site 985665003964 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 985665003965 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 985665003966 dimer interface [polypeptide binding]; other site 985665003967 conserved gate region; other site 985665003968 putative PBP binding loops; other site 985665003969 ABC-ATPase subunit interface; other site 985665003970 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665003971 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 985665003972 dimer interface [polypeptide binding]; other site 985665003973 conserved gate region; other site 985665003974 putative PBP binding loops; other site 985665003975 ABC-ATPase subunit interface; other site 985665003976 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985665003977 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 985665003978 xanthine permease; Region: pbuX; TIGR03173 985665003979 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985665003980 active site 985665003981 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 985665003982 N- and C-terminal domain interface [polypeptide binding]; other site 985665003983 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 985665003984 active site 985665003985 putative catalytic site [active] 985665003986 metal binding site [ion binding]; metal-binding site 985665003987 ATP binding site [chemical binding]; other site 985665003988 carbohydrate binding site [chemical binding]; other site 985665003989 L-rhamnose isomerase; Provisional; Region: PRK01076 985665003990 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 985665003991 intersubunit interface [polypeptide binding]; other site 985665003992 active site 985665003993 Zn2+ binding site [ion binding]; other site 985665003994 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 985665003995 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 985665003996 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 985665003997 active site 985665003998 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665003999 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665004000 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665004001 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665004002 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 985665004003 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 985665004004 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985665004005 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 985665004006 putative active site [active] 985665004007 putative FMN binding site [chemical binding]; other site 985665004008 putative substrate binding site [chemical binding]; other site 985665004009 putative catalytic residue [active] 985665004010 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 985665004011 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 985665004012 DNA binding residues [nucleotide binding] 985665004013 putative dimer interface [polypeptide binding]; other site 985665004014 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 985665004015 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 985665004016 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 985665004017 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 985665004018 heterodimer interface [polypeptide binding]; other site 985665004019 active site 985665004020 FMN binding site [chemical binding]; other site 985665004021 homodimer interface [polypeptide binding]; other site 985665004022 substrate binding site [chemical binding]; other site 985665004023 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 985665004024 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 985665004025 FAD binding pocket [chemical binding]; other site 985665004026 FAD binding motif [chemical binding]; other site 985665004027 phosphate binding motif [ion binding]; other site 985665004028 beta-alpha-beta structure motif; other site 985665004029 NAD binding pocket [chemical binding]; other site 985665004030 Iron coordination center [ion binding]; other site 985665004031 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 985665004032 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 985665004033 FeS/SAM binding site; other site 985665004034 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665004035 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665004036 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665004037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 985665004038 Homeodomain-like domain; Region: HTH_23; cl17451 985665004039 Integrase core domain; Region: rve; pfam00665 985665004040 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 985665004041 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 985665004042 DNA binding residues [nucleotide binding] 985665004043 putative dimer interface [polypeptide binding]; other site 985665004044 oxidoreductase; Provisional; Region: PRK12742 985665004045 classical (c) SDRs; Region: SDR_c; cd05233 985665004046 NAD(P) binding site [chemical binding]; other site 985665004047 active site 985665004048 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 985665004049 Coenzyme A binding pocket [chemical binding]; other site 985665004050 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 985665004051 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 985665004052 catalytic residues [active] 985665004053 dimer interface [polypeptide binding]; other site 985665004054 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 985665004055 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665004056 DNA-binding interface [nucleotide binding]; DNA binding site 985665004057 WHG domain; Region: WHG; pfam13305 985665004058 short chain dehydrogenase; Provisional; Region: PRK12939 985665004059 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 985665004060 NADP binding site [chemical binding]; other site 985665004061 homodimer interface [polypeptide binding]; other site 985665004062 active site 985665004063 substrate binding site [chemical binding]; other site 985665004064 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 985665004065 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 985665004066 ligand binding site [chemical binding]; other site 985665004067 flexible hinge region; other site 985665004068 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 985665004069 non-specific DNA interactions [nucleotide binding]; other site 985665004070 DNA binding site [nucleotide binding] 985665004071 sequence specific DNA binding site [nucleotide binding]; other site 985665004072 putative cAMP binding site [chemical binding]; other site 985665004073 DinB superfamily; Region: DinB_2; pfam12867 985665004074 Predicted transcriptional regulator [Transcription]; Region: COG2378 985665004075 HTH domain; Region: HTH_11; pfam08279 985665004076 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 985665004077 WYL domain; Region: WYL; pfam13280 985665004078 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 985665004079 GIY-YIG motif/motif A; other site 985665004080 active site 985665004081 catalytic site [active] 985665004082 putative DNA binding site [nucleotide binding]; other site 985665004083 metal binding site [ion binding]; metal-binding site 985665004084 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 985665004085 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 985665004086 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 985665004087 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985665004088 catalytic residue [active] 985665004089 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 985665004090 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 985665004091 PYR/PP interface [polypeptide binding]; other site 985665004092 dimer interface [polypeptide binding]; other site 985665004093 TPP binding site [chemical binding]; other site 985665004094 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 985665004095 TPP-binding site; other site 985665004096 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 985665004097 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 985665004098 tetramer interface [polypeptide binding]; other site 985665004099 active site 985665004100 Mg2+/Mn2+ binding site [ion binding]; other site 985665004101 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 985665004102 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 985665004103 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 985665004104 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 985665004105 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 985665004106 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 985665004107 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665004108 active site 985665004109 catalytic tetrad [active] 985665004110 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 985665004111 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 985665004112 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 985665004113 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 985665004114 [2Fe-2S] cluster binding site [ion binding]; other site 985665004115 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665004116 Zn2+ binding site [ion binding]; other site 985665004117 Mg2+ binding site [ion binding]; other site 985665004118 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665004119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665004120 active site 985665004121 phosphorylation site [posttranslational modification] 985665004122 intermolecular recognition site; other site 985665004123 dimerization interface [polypeptide binding]; other site 985665004124 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 985665004125 DNA binding site [nucleotide binding] 985665004126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665004127 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665004128 ATP binding site [chemical binding]; other site 985665004129 Mg2+ binding site [ion binding]; other site 985665004130 G-X-G motif; other site 985665004131 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985665004132 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 985665004133 Walker A/P-loop; other site 985665004134 ATP binding site [chemical binding]; other site 985665004135 Q-loop/lid; other site 985665004136 ABC transporter signature motif; other site 985665004137 Walker B; other site 985665004138 D-loop; other site 985665004139 H-loop/switch region; other site 985665004140 FtsX-like permease family; Region: FtsX; pfam02687 985665004141 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 985665004142 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665004143 active site 985665004144 catalytic tetrad [active] 985665004145 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 985665004146 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 985665004147 FeS/SAM binding site; other site 985665004148 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985665004149 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 985665004150 putative DNA binding site [nucleotide binding]; other site 985665004151 putative Zn2+ binding site [ion binding]; other site 985665004152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665004153 NmrA-like family; Region: NmrA; pfam05368 985665004154 NAD(P) binding site [chemical binding]; other site 985665004155 active site 985665004156 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 985665004157 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 985665004158 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 985665004159 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985665004160 catalytic residue [active] 985665004161 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 985665004162 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 985665004163 Predicted transcriptional regulator [Transcription]; Region: COG1959 985665004164 Transcriptional regulator; Region: Rrf2; pfam02082 985665004165 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 985665004166 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 985665004167 NADP binding site [chemical binding]; other site 985665004168 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 985665004169 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 985665004170 PhnA protein; Region: PhnA; pfam03831 985665004171 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 985665004172 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 985665004173 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 985665004174 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 985665004175 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 985665004176 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 985665004177 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 985665004178 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 985665004179 glycerate kinase; Region: TIGR00045 985665004180 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 985665004181 fructuronate transporter; Provisional; Region: PRK10034; cl15264 985665004182 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 985665004183 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 985665004184 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 985665004185 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 985665004186 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 985665004187 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665004188 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665004189 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 985665004190 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 985665004191 ATP binding site [chemical binding]; other site 985665004192 Mg++ binding site [ion binding]; other site 985665004193 motif III; other site 985665004194 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 985665004195 nucleotide binding region [chemical binding]; other site 985665004196 ATP-binding site [chemical binding]; other site 985665004197 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 985665004198 hypothetical protein; Provisional; Region: PRK06851 985665004199 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 985665004200 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 985665004201 binding surface 985665004202 Tetratricopeptide repeat; Region: TPR_16; pfam13432 985665004203 TPR motif; other site 985665004204 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 985665004205 Arabinogalactan endo-1,4-beta-galactosidase [Carbohydrate transport and metabolism]; Region: COG3867 985665004206 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 985665004207 S-layer homology domain; Region: SLH; pfam00395 985665004208 S-layer homology domain; Region: SLH; pfam00395 985665004209 S-layer homology domain; Region: SLH; pfam00395 985665004210 malate:quinone oxidoreductase; Validated; Region: PRK05257 985665004211 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 985665004212 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 985665004213 L-arabinose isomerase; Provisional; Region: PRK02929 985665004214 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; cl00947 985665004215 hexamer (dimer of trimers) interface [polypeptide binding]; other site 985665004216 trimer interface [polypeptide binding]; other site 985665004217 substrate binding site [chemical binding]; other site 985665004218 Mn binding site [ion binding]; other site 985665004219 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 985665004220 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 985665004221 intersubunit interface [polypeptide binding]; other site 985665004222 active site 985665004223 Zn2+ binding site [ion binding]; other site 985665004224 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 985665004225 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 985665004226 putative N- and C-terminal domain interface [polypeptide binding]; other site 985665004227 putative active site [active] 985665004228 MgATP binding site [chemical binding]; other site 985665004229 catalytic site [active] 985665004230 metal binding site [ion binding]; metal-binding site 985665004231 putative carbohydrate binding site [chemical binding]; other site 985665004232 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665004233 DNA-binding site [nucleotide binding]; DNA binding site 985665004234 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665004235 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 985665004236 putative dimerization interface [polypeptide binding]; other site 985665004237 putative ligand binding site [chemical binding]; other site 985665004238 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665004239 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985665004240 haloalkane dehalogenase; Provisional; Region: PRK03204 985665004241 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 985665004242 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; cl17426 985665004243 NADP+ binding site [chemical binding]; other site 985665004244 RibD C-terminal domain; Region: RibD_C; cl17279 985665004245 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 985665004246 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665004247 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 985665004248 active site 985665004249 S-layer homology domain; Region: SLH; pfam00395 985665004250 S-layer homology domain; Region: SLH; pfam00395 985665004251 S-layer homology domain; Region: SLH; pfam00395 985665004252 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665004253 Predicted acyl esterases [General function prediction only]; Region: COG2936 985665004254 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 985665004255 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665004256 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665004257 Uncharacterized conserved protein [Function unknown]; Region: COG2353 985665004258 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665004259 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665004260 putative substrate translocation pore; other site 985665004261 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665004262 Methyltransferase domain; Region: Methyltransf_23; pfam13489 985665004263 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 985665004264 S-adenosylmethionine binding site [chemical binding]; other site 985665004265 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 985665004266 Sm and related proteins; Region: Sm_like; cl00259 985665004267 Sm1 motif; other site 985665004268 RNA binding site [nucleotide binding]; other site 985665004269 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 985665004270 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 985665004271 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 985665004272 Predicted membrane protein [Function unknown]; Region: COG2323 985665004273 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 985665004274 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_7; cd08900 985665004275 putative hydrophobic ligand binding site [chemical binding]; other site 985665004276 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 985665004277 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 985665004278 DNA binding residues [nucleotide binding] 985665004279 putative dimer interface [polypeptide binding]; other site 985665004280 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 985665004281 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 985665004282 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665004283 DNA-binding site [nucleotide binding]; DNA binding site 985665004284 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 985665004285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665004286 homodimer interface [polypeptide binding]; other site 985665004287 catalytic residue [active] 985665004288 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 985665004289 binding surface 985665004290 TPR motif; other site 985665004291 TPR repeat; Region: TPR_11; pfam13414 985665004292 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 985665004293 active site 985665004294 catalytic site [active] 985665004295 Cna protein B-type domain; Region: Cna_B; pfam05738 985665004296 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 985665004297 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 985665004298 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665004299 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 985665004300 DNA binding residues [nucleotide binding] 985665004301 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 985665004302 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 985665004303 G1 box; other site 985665004304 putative GEF interaction site [polypeptide binding]; other site 985665004305 GTP/Mg2+ binding site [chemical binding]; other site 985665004306 Switch I region; other site 985665004307 G2 box; other site 985665004308 G3 box; other site 985665004309 Switch II region; other site 985665004310 G4 box; other site 985665004311 G5 box; other site 985665004312 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 985665004313 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 985665004314 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 985665004315 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 985665004316 GIY-YIG motif/motif A; other site 985665004317 putative active site [active] 985665004318 putative metal binding site [ion binding]; other site 985665004319 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 985665004320 Uncharacterized conserved protein [Function unknown]; Region: COG3410 985665004321 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 985665004322 active site 985665004323 NTP binding site [chemical binding]; other site 985665004324 metal binding triad [ion binding]; metal-binding site 985665004325 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 985665004326 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 985665004327 non-specific DNA binding site [nucleotide binding]; other site 985665004328 salt bridge; other site 985665004329 sequence-specific DNA binding site [nucleotide binding]; other site 985665004330 DinB superfamily; Region: DinB_2; pfam12867 985665004331 DinB family; Region: DinB; cl17821 985665004332 Helix-turn-helix domain; Region: HTH_18; pfam12833 985665004333 YyzF-like protein; Region: YyzF; pfam14116 985665004334 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 985665004335 S-adenosylmethionine binding site [chemical binding]; other site 985665004336 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 985665004337 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 985665004338 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 985665004339 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 985665004340 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 985665004341 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 985665004342 protein binding site [polypeptide binding]; other site 985665004343 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 985665004344 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 985665004345 YycH protein; Region: YycI; cl02015 985665004346 YycH protein; Region: YycH; pfam07435 985665004347 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 985665004348 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 985665004349 dimerization interface [polypeptide binding]; other site 985665004350 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 985665004351 putative active site [active] 985665004352 heme pocket [chemical binding]; other site 985665004353 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 985665004354 dimer interface [polypeptide binding]; other site 985665004355 phosphorylation site [posttranslational modification] 985665004356 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665004357 ATP binding site [chemical binding]; other site 985665004358 Mg2+ binding site [ion binding]; other site 985665004359 G-X-G motif; other site 985665004360 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665004361 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665004362 active site 985665004363 phosphorylation site [posttranslational modification] 985665004364 intermolecular recognition site; other site 985665004365 dimerization interface [polypeptide binding]; other site 985665004366 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 985665004367 DNA binding site [nucleotide binding] 985665004368 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985665004369 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 985665004370 G5 domain; Region: G5; pfam07501 985665004371 Peptidase family M23; Region: Peptidase_M23; pfam01551 985665004372 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 985665004373 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665004374 DNA-binding site [nucleotide binding]; DNA binding site 985665004375 UTRA domain; Region: UTRA; pfam07702 985665004376 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 985665004377 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 985665004378 active site 985665004379 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 985665004380 dimer interface [polypeptide binding]; other site 985665004381 conserved gate region; other site 985665004382 putative PBP binding loops; other site 985665004383 ABC-ATPase subunit interface; other site 985665004384 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 985665004385 hypothetical protein; Provisional; Region: PRK11622 985665004386 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 985665004387 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665004388 Walker A/P-loop; other site 985665004389 ATP binding site [chemical binding]; other site 985665004390 Q-loop/lid; other site 985665004391 ABC transporter signature motif; other site 985665004392 Walker B; other site 985665004393 D-loop; other site 985665004394 H-loop/switch region; other site 985665004395 TOBE domain; Region: TOBE_2; pfam08402 985665004396 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 985665004397 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 985665004398 dimer interface [polypeptide binding]; other site 985665004399 conserved gate region; other site 985665004400 putative PBP binding loops; other site 985665004401 ABC-ATPase subunit interface; other site 985665004402 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 985665004403 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 985665004404 GDP-binding site [chemical binding]; other site 985665004405 ACT binding site; other site 985665004406 IMP binding site; other site 985665004407 replicative DNA helicase; Provisional; Region: PRK05748 985665004408 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 985665004409 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 985665004410 Walker A motif; other site 985665004411 ATP binding site [chemical binding]; other site 985665004412 Walker B motif; other site 985665004413 DNA binding loops [nucleotide binding] 985665004414 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 985665004415 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 985665004416 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 985665004417 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 985665004418 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 985665004419 DHH family; Region: DHH; pfam01368 985665004420 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 985665004421 MazG-like family; Region: MazG-like; pfam12643 985665004422 FOG: CBS domain [General function prediction only]; Region: COG0517 985665004423 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 985665004424 Transcriptional regulator [Transcription]; Region: LytR; COG1316 985665004425 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 985665004426 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 985665004427 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 985665004428 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665004429 Walker A/P-loop; other site 985665004430 ATP binding site [chemical binding]; other site 985665004431 Q-loop/lid; other site 985665004432 ABC transporter signature motif; other site 985665004433 Walker B; other site 985665004434 D-loop; other site 985665004435 H-loop/switch region; other site 985665004436 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 985665004437 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 985665004438 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665004439 Walker A/P-loop; other site 985665004440 ATP binding site [chemical binding]; other site 985665004441 Q-loop/lid; other site 985665004442 ABC transporter signature motif; other site 985665004443 Walker B; other site 985665004444 D-loop; other site 985665004445 H-loop/switch region; other site 985665004446 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 985665004447 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 985665004448 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 985665004449 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 985665004450 dimer interface [polypeptide binding]; other site 985665004451 conserved gate region; other site 985665004452 putative PBP binding loops; other site 985665004453 ABC-ATPase subunit interface; other site 985665004454 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665004455 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 985665004456 dimer interface [polypeptide binding]; other site 985665004457 conserved gate region; other site 985665004458 putative PBP binding loops; other site 985665004459 ABC-ATPase subunit interface; other site 985665004460 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985665004461 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; cd00995 985665004462 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 985665004463 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 985665004464 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 985665004465 dimer interface [polypeptide binding]; other site 985665004466 ssDNA binding site [nucleotide binding]; other site 985665004467 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985665004468 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 985665004469 YjzC-like protein; Region: YjzC; pfam14168 985665004470 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 985665004471 non-specific DNA binding site [nucleotide binding]; other site 985665004472 salt bridge; other site 985665004473 sequence-specific DNA binding site [nucleotide binding]; other site 985665004474 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 985665004475 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 985665004476 Mechanosensitive ion channel; Region: MS_channel; pfam00924 985665004477 Protein of unknown function (DUF1256); Region: DUF1256; pfam06866 985665004478 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 985665004479 ParB-like nuclease domain; Region: ParB; smart00470 985665004480 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 985665004481 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 985665004482 P-loop; other site 985665004483 Magnesium ion binding site [ion binding]; other site 985665004484 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 985665004485 Magnesium ion binding site [ion binding]; other site 985665004486 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 985665004487 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 985665004488 ParB-like nuclease domain; Region: ParB; smart00470 985665004489 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 985665004490 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 985665004491 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 985665004492 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 985665004493 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 985665004494 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 985665004495 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 985665004496 trmE is a tRNA modification GTPase; Region: trmE; cd04164 985665004497 G1 box; other site 985665004498 GTP/Mg2+ binding site [chemical binding]; other site 985665004499 Switch I region; other site 985665004500 G2 box; other site 985665004501 Switch II region; other site 985665004502 G3 box; other site 985665004503 G4 box; other site 985665004504 G5 box; other site 985665004505 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 985665004506 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 985665004507 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 985665004508 G-X-X-G motif; other site 985665004509 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 985665004510 RxxxH motif; other site 985665004511 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 985665004512 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 985665004513 ribonuclease P; Reviewed; Region: rnpA; PRK00499 985665004514 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 985665004515 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 985665004516 DnaA N-terminal domain; Region: DnaA_N; pfam11638 985665004517 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 985665004518 Walker A motif; other site 985665004519 ATP binding site [chemical binding]; other site 985665004520 Walker B motif; other site 985665004521 arginine finger; other site 985665004522 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 985665004523 DnaA box-binding interface [nucleotide binding]; other site 985665004524 DNA polymerase III subunit beta; Validated; Region: PRK05643 985665004525 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 985665004526 putative DNA binding surface [nucleotide binding]; other site 985665004527 dimer interface [polypeptide binding]; other site 985665004528 beta-clamp/clamp loader binding surface; other site 985665004529 beta-clamp/translesion DNA polymerase binding surface; other site 985665004530 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 985665004531 RNA binding surface [nucleotide binding]; other site 985665004532 recombination protein F; Reviewed; Region: recF; PRK00064 985665004533 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 985665004534 Walker A/P-loop; other site 985665004535 ATP binding site [chemical binding]; other site 985665004536 Q-loop/lid; other site 985665004537 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665004538 ABC transporter signature motif; other site 985665004539 Walker B; other site 985665004540 D-loop; other site 985665004541 H-loop/switch region; other site 985665004542 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 985665004543 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665004544 Mg2+ binding site [ion binding]; other site 985665004545 G-X-G motif; other site 985665004546 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 985665004547 anchoring element; other site 985665004548 dimer interface [polypeptide binding]; other site 985665004549 ATP binding site [chemical binding]; other site 985665004550 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 985665004551 active site 985665004552 putative metal-binding site [ion binding]; other site 985665004553 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 985665004554 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 985665004555 DNA gyrase subunit A; Validated; Region: PRK05560 985665004556 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 985665004557 CAP-like domain; other site 985665004558 active site 985665004559 primary dimer interface [polypeptide binding]; other site 985665004560 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985665004561 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985665004562 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985665004563 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985665004564 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985665004565 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985665004566 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 985665004567 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665004568 Zn2+ binding site [ion binding]; other site 985665004569 Mg2+ binding site [ion binding]; other site 985665004570 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 985665004571 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 985665004572 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 985665004573 homodimer interface [polypeptide binding]; other site 985665004574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665004575 catalytic residue [active] 985665004576 thymidylate kinase; Validated; Region: tmk; PRK00698 985665004577 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 985665004578 TMP-binding site; other site 985665004579 ATP-binding site [chemical binding]; other site 985665004580 Protein of unknown function (DUF970); Region: DUF970; pfam06153 985665004581 Protein of unknown function (DUF327); Region: DUF327; pfam03885 985665004582 DNA polymerase III subunit delta'; Validated; Region: PRK08058 985665004583 DNA polymerase III subunit delta'; Validated; Region: PRK08485 985665004584 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 985665004585 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 985665004586 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 985665004587 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 985665004588 S-adenosylmethionine binding site [chemical binding]; other site 985665004589 Predicted methyltransferases [General function prediction only]; Region: COG0313 985665004590 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 985665004591 putative SAM binding site [chemical binding]; other site 985665004592 putative homodimer interface [polypeptide binding]; other site 985665004593 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 985665004594 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 985665004595 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665004596 Zn2+ binding site [ion binding]; other site 985665004597 Mg2+ binding site [ion binding]; other site 985665004598 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 985665004599 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 985665004600 active site 985665004601 Domain of unknown function (DUF348); Region: DUF348; pfam03990 985665004602 Domain of unknown function (DUF348); Region: DUF348; pfam03990 985665004603 G5 domain; Region: G5; pfam07501 985665004604 3D domain; Region: 3D; cl01439 985665004605 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 985665004606 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 985665004607 putative active site [active] 985665004608 putative metal binding site [ion binding]; other site 985665004609 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 985665004610 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 985665004611 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 985665004612 S-adenosylmethionine binding site [chemical binding]; other site 985665004613 YabG peptidase U57; Region: Peptidase_U57; cl05250 985665004614 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 985665004615 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 985665004616 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 985665004617 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 985665004618 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 985665004619 pur operon repressor; Provisional; Region: PRK09213 985665004620 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 985665004621 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985665004622 active site 985665004623 regulatory protein SpoVG; Reviewed; Region: PRK13259 985665004624 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 985665004625 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 985665004626 Substrate binding site; other site 985665004627 Mg++ binding site; other site 985665004628 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 985665004629 active site 985665004630 substrate binding site [chemical binding]; other site 985665004631 CoA binding site [chemical binding]; other site 985665004632 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 985665004633 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 985665004634 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985665004635 active site 985665004636 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 985665004637 putative active site [active] 985665004638 catalytic residue [active] 985665004639 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 985665004640 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 985665004641 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 985665004642 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 985665004643 ATP binding site [chemical binding]; other site 985665004644 putative Mg++ binding site [ion binding]; other site 985665004645 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 985665004646 nucleotide binding region [chemical binding]; other site 985665004647 ATP-binding site [chemical binding]; other site 985665004648 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 985665004649 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 985665004650 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 985665004651 stage V sporulation protein T; Region: spore_V_T; TIGR02851 985665004652 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 985665004653 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 985665004654 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 985665004655 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 985665004656 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 985665004657 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 985665004658 putative SAM binding site [chemical binding]; other site 985665004659 putative homodimer interface [polypeptide binding]; other site 985665004660 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 985665004661 homodimer interface [polypeptide binding]; other site 985665004662 metal binding site [ion binding]; metal-binding site 985665004663 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 985665004664 homodimer interface [polypeptide binding]; other site 985665004665 active site 985665004666 putative chemical substrate binding site [chemical binding]; other site 985665004667 metal binding site [ion binding]; metal-binding site 985665004668 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 985665004669 IHF dimer interface [polypeptide binding]; other site 985665004670 IHF - DNA interface [nucleotide binding]; other site 985665004671 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 985665004672 RNA binding surface [nucleotide binding]; other site 985665004673 YabP family; Region: YabP; cl06766 985665004674 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 985665004675 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 985665004676 Septum formation initiator; Region: DivIC; cl17659 985665004677 hypothetical protein; Provisional; Region: PRK08582 985665004678 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 985665004679 RNA binding site [nucleotide binding]; other site 985665004680 stage II sporulation protein E; Region: spore_II_E; TIGR02865 985665004681 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 985665004682 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 985665004683 metal ion-dependent adhesion site (MIDAS); other site 985665004684 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 985665004685 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 985665004686 active site 985665004687 ATP binding site [chemical binding]; other site 985665004688 substrate binding site [chemical binding]; other site 985665004689 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 985665004690 substrate binding site [chemical binding]; other site 985665004691 activation loop (A-loop); other site 985665004692 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 985665004693 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 985665004694 Ligand Binding Site [chemical binding]; other site 985665004695 TilS substrate C-terminal domain; Region: TilS_C; smart00977 985665004696 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985665004697 active site 985665004698 FtsH Extracellular; Region: FtsH_ext; pfam06480 985665004699 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 985665004700 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 985665004701 Walker A motif; other site 985665004702 ATP binding site [chemical binding]; other site 985665004703 Walker B motif; other site 985665004704 arginine finger; other site 985665004705 Peptidase family M41; Region: Peptidase_M41; pfam01434 985665004706 L-aspartate oxidase; Provisional; Region: PRK06175 985665004707 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 985665004708 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 985665004709 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 985665004710 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 985665004711 dimerization interface [polypeptide binding]; other site 985665004712 active site 985665004713 pantothenate kinase; Reviewed; Region: PRK13318 985665004714 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 985665004715 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 985665004716 dimerization interface [polypeptide binding]; other site 985665004717 domain crossover interface; other site 985665004718 redox-dependent activation switch; other site 985665004719 SurA N-terminal domain; Region: SurA_N_3; cl07813 985665004720 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 985665004721 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 985665004722 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 985665004723 dimer interface [polypeptide binding]; other site 985665004724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665004725 catalytic residue [active] 985665004726 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 985665004727 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 985665004728 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 985665004729 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 985665004730 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 985665004731 glutamine binding [chemical binding]; other site 985665004732 catalytic triad [active] 985665004733 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 985665004734 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 985665004735 homodimer interface [polypeptide binding]; other site 985665004736 substrate-cofactor binding pocket; other site 985665004737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665004738 catalytic residue [active] 985665004739 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 985665004740 dihydropteroate synthase; Region: DHPS; TIGR01496 985665004741 substrate binding pocket [chemical binding]; other site 985665004742 dimer interface [polypeptide binding]; other site 985665004743 inhibitor binding site; inhibition site 985665004744 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 985665004745 homooctamer interface [polypeptide binding]; other site 985665004746 active site 985665004747 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 985665004748 catalytic center binding site [active] 985665004749 ATP binding site [chemical binding]; other site 985665004750 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 985665004751 non-specific DNA binding site [nucleotide binding]; other site 985665004752 salt bridge; other site 985665004753 sequence-specific DNA binding site [nucleotide binding]; other site 985665004754 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 985665004755 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 985665004756 FMN binding site [chemical binding]; other site 985665004757 active site 985665004758 catalytic residues [active] 985665004759 substrate binding site [chemical binding]; other site 985665004760 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 985665004761 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 985665004762 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 985665004763 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 985665004764 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 985665004765 dimer interface [polypeptide binding]; other site 985665004766 putative anticodon binding site; other site 985665004767 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 985665004768 motif 1; other site 985665004769 active site 985665004770 motif 2; other site 985665004771 motif 3; other site 985665004772 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 985665004773 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 985665004774 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 985665004775 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665004776 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 985665004777 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 985665004778 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 985665004779 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 985665004780 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 985665004781 active site 985665004782 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 985665004783 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 985665004784 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 985665004785 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 985665004786 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 985665004787 active site 985665004788 multimer interface [polypeptide binding]; other site 985665004789 imidazole glycerol phosphate synthase subunit hisH; Provisional; Region: hisH; CHL00188 985665004790 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 985665004791 predicted active site [active] 985665004792 catalytic triad [active] 985665004793 seryl-tRNA synthetase; Provisional; Region: PRK05431 985665004794 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 985665004795 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 985665004796 dimer interface [polypeptide binding]; other site 985665004797 active site 985665004798 motif 1; other site 985665004799 motif 2; other site 985665004800 motif 3; other site 985665004801 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985665004802 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985665004803 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 985665004804 nucleoside/Zn binding site; other site 985665004805 dimer interface [polypeptide binding]; other site 985665004806 catalytic motif [active] 985665004807 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 985665004808 dimerization interface [polypeptide binding]; other site 985665004809 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 985665004810 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 985665004811 putative active site [active] 985665004812 heme pocket [chemical binding]; other site 985665004813 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 985665004814 dimer interface [polypeptide binding]; other site 985665004815 phosphorylation site [posttranslational modification] 985665004816 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665004817 ATP binding site [chemical binding]; other site 985665004818 Mg2+ binding site [ion binding]; other site 985665004819 G-X-G motif; other site 985665004820 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 985665004821 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 985665004822 RNA binding surface [nucleotide binding]; other site 985665004823 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 985665004824 probable active site [active] 985665004825 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 985665004826 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 985665004827 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 985665004828 ligand binding site [chemical binding]; other site 985665004829 flagellar motor protein MotA; Validated; Region: PRK08124 985665004830 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 985665004831 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 985665004832 aromatic arch; other site 985665004833 DCoH dimer interaction site [polypeptide binding]; other site 985665004834 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 985665004835 DCoH tetramer interaction site [polypeptide binding]; other site 985665004836 substrate binding site [chemical binding]; other site 985665004837 NlpC/P60 family; Region: NLPC_P60; pfam00877 985665004838 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 985665004839 Zn binding site [ion binding]; other site 985665004840 YwhD family; Region: YwhD; pfam08741 985665004841 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985665004842 HPr interaction site; other site 985665004843 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665004844 active site 985665004845 phosphorylation site [posttranslational modification] 985665004846 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 985665004847 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 985665004848 catalytic core [active] 985665004849 Predicted transcriptional regulator [Transcription]; Region: COG2378 985665004850 HTH domain; Region: HTH_11; pfam08279 985665004851 WYL domain; Region: WYL; pfam13280 985665004852 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 985665004853 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 985665004854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665004855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665004856 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 985665004857 dimerization interface [polypeptide binding]; other site 985665004858 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 985665004859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665004860 NAD(P) binding site [chemical binding]; other site 985665004861 active site 985665004862 Histidine kinase; Region: His_kinase; pfam06580 985665004863 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665004864 ATP binding site [chemical binding]; other site 985665004865 Mg2+ binding site [ion binding]; other site 985665004866 G-X-G motif; other site 985665004867 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 985665004868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665004869 active site 985665004870 phosphorylation site [posttranslational modification] 985665004871 intermolecular recognition site; other site 985665004872 dimerization interface [polypeptide binding]; other site 985665004873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665004874 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665004875 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665004876 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665004877 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 985665004878 putative PBP binding loops; other site 985665004879 dimer interface [polypeptide binding]; other site 985665004880 ABC-ATPase subunit interface; other site 985665004881 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665004882 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 985665004883 dimer interface [polypeptide binding]; other site 985665004884 conserved gate region; other site 985665004885 putative PBP binding loops; other site 985665004886 ABC-ATPase subunit interface; other site 985665004887 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 985665004888 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 985665004889 NodB motif; other site 985665004890 active site 985665004891 catalytic site [active] 985665004892 metal binding site [ion binding]; metal-binding site 985665004893 Transglycosylase; Region: Transgly; pfam00912 985665004894 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 985665004895 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 985665004896 spermidine synthase; Provisional; Region: PRK00811 985665004897 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 985665004898 H+ Antiporter protein; Region: 2A0121; TIGR00900 985665004899 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665004900 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 985665004901 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 985665004902 metal binding site [ion binding]; metal-binding site 985665004903 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665004904 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665004905 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 985665004906 Walker A/P-loop; other site 985665004907 ATP binding site [chemical binding]; other site 985665004908 Q-loop/lid; other site 985665004909 ABC transporter signature motif; other site 985665004910 Walker B; other site 985665004911 D-loop; other site 985665004912 H-loop/switch region; other site 985665004913 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665004914 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665004915 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665004916 Walker A/P-loop; other site 985665004917 ATP binding site [chemical binding]; other site 985665004918 Q-loop/lid; other site 985665004919 ABC transporter signature motif; other site 985665004920 Walker B; other site 985665004921 D-loop; other site 985665004922 H-loop/switch region; other site 985665004923 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665004924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665004925 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 985665004926 dimerization interface [polypeptide binding]; other site 985665004927 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 985665004928 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 985665004929 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 985665004930 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 985665004931 active site 985665004932 HIGH motif; other site 985665004933 KMSK motif region; other site 985665004934 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 985665004935 tRNA binding surface [nucleotide binding]; other site 985665004936 anticodon binding site; other site 985665004937 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 985665004938 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665004939 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 985665004940 putative dimerization interface [polypeptide binding]; other site 985665004941 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 985665004942 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665004943 Walker A/P-loop; other site 985665004944 ATP binding site [chemical binding]; other site 985665004945 Q-loop/lid; other site 985665004946 ABC transporter signature motif; other site 985665004947 Walker B; other site 985665004948 D-loop; other site 985665004949 H-loop/switch region; other site 985665004950 TOBE domain; Region: TOBE_2; pfam08402 985665004951 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 985665004952 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 985665004953 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 985665004954 dimer interface [polypeptide binding]; other site 985665004955 conserved gate region; other site 985665004956 putative PBP binding loops; other site 985665004957 ABC-ATPase subunit interface; other site 985665004958 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 985665004959 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 985665004960 dimer interface [polypeptide binding]; other site 985665004961 conserved gate region; other site 985665004962 putative PBP binding loops; other site 985665004963 ABC-ATPase subunit interface; other site 985665004964 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 985665004965 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 985665004966 Beta-Casp domain; Region: Beta-Casp; smart01027 985665004967 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 985665004968 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 985665004969 active site 985665004970 catalytic residues [active] 985665004971 DNA-directed RNA polymerase subunit delta; Reviewed; Region: PRK02363 985665004972 CTP synthetase; Validated; Region: pyrG; PRK05380 985665004973 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 985665004974 Catalytic site [active] 985665004975 active site 985665004976 UTP binding site [chemical binding]; other site 985665004977 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 985665004978 active site 985665004979 putative oxyanion hole; other site 985665004980 catalytic triad [active] 985665004981 Response regulator receiver domain; Region: Response_reg; pfam00072 985665004982 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665004983 active site 985665004984 phosphorylation site [posttranslational modification] 985665004985 intermolecular recognition site; other site 985665004986 dimerization interface [polypeptide binding]; other site 985665004987 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 985665004988 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 985665004989 intersubunit interface [polypeptide binding]; other site 985665004990 active site 985665004991 zinc binding site [ion binding]; other site 985665004992 Na+ binding site [ion binding]; other site 985665004993 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 985665004994 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 985665004995 hinge; other site 985665004996 active site 985665004997 transcription termination factor Rho; Provisional; Region: rho; PRK09376 985665004998 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 985665004999 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 985665005000 RNA binding site [nucleotide binding]; other site 985665005001 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 985665005002 multimer interface [polypeptide binding]; other site 985665005003 Walker A motif; other site 985665005004 ATP binding site [chemical binding]; other site 985665005005 Walker B motif; other site 985665005006 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 985665005007 Radical SAM superfamily; Region: Radical_SAM; pfam04055 985665005008 FeS/SAM binding site; other site 985665005009 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 985665005010 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 985665005011 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 985665005012 Walker A motif; other site 985665005013 ATP binding site [chemical binding]; other site 985665005014 Walker B motif; other site 985665005015 arginine finger; other site 985665005016 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 985665005017 hypothetical protein; Validated; Region: PRK00153 985665005018 recombination protein RecR; Reviewed; Region: recR; PRK00076 985665005019 RecR protein; Region: RecR; pfam02132 985665005020 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 985665005021 putative active site [active] 985665005022 putative metal-binding site [ion binding]; other site 985665005023 tetramer interface [polypeptide binding]; other site 985665005024 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 985665005025 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985665005026 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 985665005027 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 985665005028 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 985665005029 Walker A/P-loop; other site 985665005030 ATP binding site [chemical binding]; other site 985665005031 Q-loop/lid; other site 985665005032 ABC transporter signature motif; other site 985665005033 Walker B; other site 985665005034 D-loop; other site 985665005035 H-loop/switch region; other site 985665005036 TOBE domain; Region: TOBE_2; pfam08402 985665005037 HPr kinase/phosphorylase; Provisional; Region: PRK05428 985665005038 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 985665005039 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 985665005040 Hpr binding site; other site 985665005041 active site 985665005042 homohexamer subunit interaction site [polypeptide binding]; other site 985665005043 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 985665005044 pyrophosphatase PpaX; Provisional; Region: PRK13288 985665005045 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 985665005046 motif II; other site 985665005047 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 985665005048 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 985665005049 trimer interface [polypeptide binding]; other site 985665005050 active site 985665005051 substrate binding site [chemical binding]; other site 985665005052 CoA binding site [chemical binding]; other site 985665005053 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 985665005054 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 985665005055 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 985665005056 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 985665005057 Walker A/P-loop; other site 985665005058 ATP binding site [chemical binding]; other site 985665005059 Q-loop/lid; other site 985665005060 ABC transporter signature motif; other site 985665005061 Walker B; other site 985665005062 D-loop; other site 985665005063 H-loop/switch region; other site 985665005064 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 985665005065 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 985665005066 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 985665005067 dimer interface [polypeptide binding]; other site 985665005068 motif 1; other site 985665005069 active site 985665005070 motif 2; other site 985665005071 motif 3; other site 985665005072 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 985665005073 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 985665005074 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 985665005075 histidinol dehydrogenase; Region: hisD; TIGR00069 985665005076 NAD binding site [chemical binding]; other site 985665005077 dimerization interface [polypeptide binding]; other site 985665005078 product binding site; other site 985665005079 substrate binding site [chemical binding]; other site 985665005080 zinc binding site [ion binding]; other site 985665005081 catalytic residues [active] 985665005082 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 985665005083 putative active site pocket [active] 985665005084 4-fold oligomerization interface [polypeptide binding]; other site 985665005085 metal binding residues [ion binding]; metal-binding site 985665005086 3-fold/trimer interface [polypeptide binding]; other site 985665005087 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 985665005088 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 985665005089 putative active site [active] 985665005090 oxyanion strand; other site 985665005091 catalytic triad [active] 985665005092 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 985665005093 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 985665005094 catalytic residues [active] 985665005095 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 985665005096 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 985665005097 substrate binding site [chemical binding]; other site 985665005098 glutamase interaction surface [polypeptide binding]; other site 985665005099 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 985665005100 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 985665005101 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 985665005102 metal binding site [ion binding]; metal-binding site 985665005103 histidinol-phosphatase; Provisional; Region: PRK07328 985665005104 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 985665005105 active site 985665005106 dimer interface [polypeptide binding]; other site 985665005107 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 985665005108 TPR motif; other site 985665005109 binding surface 985665005110 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 985665005111 TPR motif; other site 985665005112 binding surface 985665005113 HEAT repeats; Region: HEAT_2; pfam13646 985665005114 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 985665005115 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985665005116 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665005117 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 985665005118 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 985665005119 nucleotide binding site [chemical binding]; other site 985665005120 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 985665005121 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 985665005122 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 985665005123 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 985665005124 phosphate binding site [ion binding]; other site 985665005125 putative substrate binding pocket [chemical binding]; other site 985665005126 dimer interface [polypeptide binding]; other site 985665005127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 985665005128 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 985665005129 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 985665005130 dimerization domain swap beta strand [polypeptide binding]; other site 985665005131 regulatory protein interface [polypeptide binding]; other site 985665005132 active site 985665005133 regulatory phosphorylation site [posttranslational modification]; other site 985665005134 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 985665005135 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665005136 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 985665005137 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 985665005138 Clp protease; Region: CLP_protease; pfam00574 985665005139 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 985665005140 oligomer interface [polypeptide binding]; other site 985665005141 active site residues [active] 985665005142 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 985665005143 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 985665005144 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 985665005145 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 985665005146 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 985665005147 Phosphoglycerate kinase; Region: PGK; pfam00162 985665005148 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 985665005149 substrate binding site [chemical binding]; other site 985665005150 hinge regions; other site 985665005151 ADP binding site [chemical binding]; other site 985665005152 catalytic site [active] 985665005153 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 985665005154 triosephosphate isomerase; Provisional; Region: PRK14565 985665005155 substrate binding site [chemical binding]; other site 985665005156 dimer interface [polypeptide binding]; other site 985665005157 catalytic triad [active] 985665005158 phosphoglyceromutase; Provisional; Region: PRK05434 985665005159 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 985665005160 enolase; Provisional; Region: eno; PRK00077 985665005161 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 985665005162 dimer interface [polypeptide binding]; other site 985665005163 metal binding site [ion binding]; metal-binding site 985665005164 substrate binding pocket [chemical binding]; other site 985665005165 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 985665005166 ribonuclease R; Region: RNase_R; TIGR02063 985665005167 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 985665005168 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 985665005169 RNB domain; Region: RNB; pfam00773 985665005170 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 985665005171 RNA binding site [nucleotide binding]; other site 985665005172 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 985665005173 SmpB-tmRNA interface; other site 985665005174 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 985665005175 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 985665005176 Integrase core domain; Region: rve; pfam00665 985665005177 Integrase core domain; Region: rve_3; cl15866 985665005178 Predicted transcriptional regulators [Transcription]; Region: COG1695 985665005179 Transcriptional regulator PadR-like family; Region: PadR; cl17335 985665005180 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665005181 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 985665005182 dimer interface [polypeptide binding]; other site 985665005183 phosphorylation site [posttranslational modification] 985665005184 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665005185 ATP binding site [chemical binding]; other site 985665005186 Mg2+ binding site [ion binding]; other site 985665005187 G-X-G motif; other site 985665005188 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 985665005189 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665005190 active site 985665005191 phosphorylation site [posttranslational modification] 985665005192 intermolecular recognition site; other site 985665005193 dimerization interface [polypeptide binding]; other site 985665005194 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665005195 Histidine kinase; Region: His_kinase; pfam06580 985665005196 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665005197 ATP binding site [chemical binding]; other site 985665005198 Mg2+ binding site [ion binding]; other site 985665005199 G-X-G motif; other site 985665005200 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 985665005201 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665005202 active site 985665005203 phosphorylation site [posttranslational modification] 985665005204 intermolecular recognition site; other site 985665005205 dimerization interface [polypeptide binding]; other site 985665005206 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 985665005207 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 985665005208 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 985665005209 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 985665005210 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 985665005211 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 985665005212 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 985665005213 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 985665005214 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 985665005215 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 985665005216 S-layer homology domain; Region: SLH; pfam00395 985665005217 S-layer homology domain; Region: SLH; pfam00395 985665005218 S-layer homology domain; Region: SLH; pfam00395 985665005219 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 985665005220 sugar binding site [chemical binding]; other site 985665005221 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 985665005222 Interdomain contacts; other site 985665005223 Cytokine receptor motif; other site 985665005224 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 985665005225 Interdomain contacts; other site 985665005226 Cytokine receptor motif; other site 985665005227 S-layer homology domain; Region: SLH; pfam00395 985665005228 S-layer homology domain; Region: SLH; pfam00395 985665005229 S-layer homology domain; Region: SLH; pfam00395 985665005230 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 985665005231 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 985665005232 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 985665005233 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 985665005234 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 985665005235 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 985665005236 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 985665005237 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 985665005238 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 985665005239 Pectate lyase; Region: Pec_lyase_C; cl01593 985665005240 Protein of unknown function (DUF817); Region: DUF817; cl01520 985665005241 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 985665005242 DoxX; Region: DoxX; pfam07681 985665005243 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 985665005244 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665005245 putative substrate translocation pore; other site 985665005246 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665005247 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665005248 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 985665005249 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 985665005250 Repair protein; Region: Repair_PSII; pfam04536 985665005251 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 985665005252 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 985665005253 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 985665005254 Predicted transcriptional regulators [Transcription]; Region: COG1510 985665005255 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 985665005256 dimer interface [polypeptide binding]; other site 985665005257 conserved gate region; other site 985665005258 putative PBP binding loops; other site 985665005259 ABC-ATPase subunit interface; other site 985665005260 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665005261 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 985665005262 dimer interface [polypeptide binding]; other site 985665005263 conserved gate region; other site 985665005264 putative PBP binding loops; other site 985665005265 ABC-ATPase subunit interface; other site 985665005266 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665005267 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 985665005268 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 985665005269 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 985665005270 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 985665005271 motif II; other site 985665005272 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 985665005273 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 985665005274 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 985665005275 active site 985665005276 metal binding site [ion binding]; metal-binding site 985665005277 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 985665005278 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 985665005279 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 985665005280 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 985665005281 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 985665005282 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 985665005283 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665005284 Phytase; Region: Phytase; cl17685 985665005285 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665005286 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665005287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 985665005288 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 985665005289 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 985665005290 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 985665005291 MATE family multidrug exporter; Provisional; Region: PRK10189 985665005292 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 985665005293 RDD family; Region: RDD; pfam06271 985665005294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 985665005295 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 985665005296 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665005297 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665005298 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665005299 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665005300 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 985665005301 active site 985665005302 phosphorylation site [posttranslational modification] 985665005303 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 985665005304 active site 985665005305 P-loop; other site 985665005306 phosphorylation site [posttranslational modification] 985665005307 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 985665005308 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 985665005309 alpha-mannosidase; Provisional; Region: PRK09819 985665005310 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 985665005311 active site 985665005312 metal binding site [ion binding]; metal-binding site 985665005313 catalytic site [active] 985665005314 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 985665005315 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985665005316 HTH domain; Region: HTH_11; pfam08279 985665005317 Mga helix-turn-helix domain; Region: Mga; pfam05043 985665005318 PRD domain; Region: PRD; pfam00874 985665005319 PRD domain; Region: PRD; pfam00874 985665005320 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 985665005321 active site 985665005322 P-loop; other site 985665005323 phosphorylation site [posttranslational modification] 985665005324 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 985665005325 active site 985665005326 phosphorylation site [posttranslational modification] 985665005327 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 985665005328 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 985665005329 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 985665005330 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 985665005331 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665005332 Transcriptional regulator; Region: Rrf2; cl17282 985665005333 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 985665005334 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 985665005335 active site turn [active] 985665005336 phosphorylation site [posttranslational modification] 985665005337 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665005338 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 985665005339 HPr interaction site; other site 985665005340 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665005341 active site 985665005342 phosphorylation site [posttranslational modification] 985665005343 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985665005344 CAT RNA binding domain; Region: CAT_RBD; smart01061 985665005345 PRD domain; Region: PRD; pfam00874 985665005346 PRD domain; Region: PRD; pfam00874 985665005347 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 985665005348 beta-galactosidase; Region: BGL; TIGR03356 985665005349 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 985665005350 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 985665005351 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 985665005352 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 985665005353 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 985665005354 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 985665005355 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665005356 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 985665005357 dimer interface [polypeptide binding]; other site 985665005358 conserved gate region; other site 985665005359 putative PBP binding loops; other site 985665005360 ABC-ATPase subunit interface; other site 985665005361 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 985665005362 dimer interface [polypeptide binding]; other site 985665005363 conserved gate region; other site 985665005364 putative PBP binding loops; other site 985665005365 ABC-ATPase subunit interface; other site 985665005366 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665005367 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 985665005368 dimerization interface [polypeptide binding]; other site 985665005369 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665005370 Histidine kinase; Region: His_kinase; pfam06580 985665005371 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 985665005372 ATP binding site [chemical binding]; other site 985665005373 Mg2+ binding site [ion binding]; other site 985665005374 G-X-G motif; other site 985665005375 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 985665005376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665005377 active site 985665005378 phosphorylation site [posttranslational modification] 985665005379 intermolecular recognition site; other site 985665005380 dimerization interface [polypeptide binding]; other site 985665005381 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665005382 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665005383 D-galactonate transporter; Region: 2A0114; TIGR00893 985665005384 putative substrate translocation pore; other site 985665005385 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 985665005386 Entner-Doudoroff aldolase; Region: eda; TIGR01182 985665005387 active site 985665005388 intersubunit interface [polypeptide binding]; other site 985665005389 catalytic residue [active] 985665005390 Transcriptional regulator [Transcription]; Region: IclR; COG1414 985665005391 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 985665005392 Bacterial transcriptional regulator; Region: IclR; pfam01614 985665005393 Predicted kinase [General function prediction only]; Region: COG0645 985665005394 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 985665005395 active site 985665005396 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 985665005397 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 985665005398 ATP-binding site [chemical binding]; other site 985665005399 Sugar specificity; other site 985665005400 Pyrimidine base specificity; other site 985665005401 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 985665005402 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 985665005403 Pectate lyase; Region: Pec_lyase_C; cl01593 985665005404 SNF2 Helicase protein; Region: DUF3670; pfam12419 985665005405 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 985665005406 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 985665005407 ATP binding site [chemical binding]; other site 985665005408 putative Mg++ binding site [ion binding]; other site 985665005409 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 985665005410 nucleotide binding region [chemical binding]; other site 985665005411 ATP-binding site [chemical binding]; other site 985665005412 SWIM zinc finger; Region: SWIM; pfam04434 985665005413 Predicted esterase [General function prediction only]; Region: COG0400 985665005414 putative hydrolase; Provisional; Region: PRK11460 985665005415 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 985665005416 catalytic motif [active] 985665005417 Catalytic residue [active] 985665005418 beta-phosphoglucomutase; Region: bPGM; TIGR01990 985665005419 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 985665005420 motif II; other site 985665005421 maltose phosphorylase; Provisional; Region: PRK13807 985665005422 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 985665005423 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 985665005424 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 985665005425 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665005426 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665005427 DNA binding site [nucleotide binding] 985665005428 domain linker motif; other site 985665005429 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 985665005430 putative dimerization interface [polypeptide binding]; other site 985665005431 putative ligand binding site [chemical binding]; other site 985665005432 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 985665005433 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665005434 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 985665005435 active site turn [active] 985665005436 phosphorylation site [posttranslational modification] 985665005437 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 985665005438 putative catalytic site [active] 985665005439 putative metal binding site [ion binding]; other site 985665005440 putative phosphate binding site [ion binding]; other site 985665005441 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665005442 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665005443 putative substrate translocation pore; other site 985665005444 DinB family; Region: DinB; cl17821 985665005445 DinB superfamily; Region: DinB_2; pfam12867 985665005446 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665005447 MarR family; Region: MarR; pfam01047 985665005448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665005449 Response regulator receiver domain; Region: Response_reg; pfam00072 985665005450 active site 985665005451 phosphorylation site [posttranslational modification] 985665005452 intermolecular recognition site; other site 985665005453 dimerization interface [polypeptide binding]; other site 985665005454 YcbB domain; Region: YcbB; pfam08664 985665005455 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665005456 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665005457 ATP binding site [chemical binding]; other site 985665005458 Mg2+ binding site [ion binding]; other site 985665005459 G-X-G motif; other site 985665005460 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 985665005461 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 985665005462 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 985665005463 PAS fold; Region: PAS_3; pfam08447 985665005464 putative active site [active] 985665005465 heme pocket [chemical binding]; other site 985665005466 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 985665005467 PAS fold; Region: PAS_3; pfam08447 985665005468 putative active site [active] 985665005469 heme pocket [chemical binding]; other site 985665005470 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665005471 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665005472 dimer interface [polypeptide binding]; other site 985665005473 putative CheW interface [polypeptide binding]; other site 985665005474 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 985665005475 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985665005476 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; cd00995 985665005477 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665005478 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 985665005479 dimer interface [polypeptide binding]; other site 985665005480 conserved gate region; other site 985665005481 putative PBP binding loops; other site 985665005482 ABC-ATPase subunit interface; other site 985665005483 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 985665005484 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 985665005485 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 985665005486 dimer interface [polypeptide binding]; other site 985665005487 conserved gate region; other site 985665005488 putative PBP binding loops; other site 985665005489 ABC-ATPase subunit interface; other site 985665005490 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 985665005491 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665005492 Walker A/P-loop; other site 985665005493 ATP binding site [chemical binding]; other site 985665005494 Q-loop/lid; other site 985665005495 ABC transporter signature motif; other site 985665005496 Walker B; other site 985665005497 D-loop; other site 985665005498 H-loop/switch region; other site 985665005499 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 985665005500 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 985665005501 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665005502 Walker A/P-loop; other site 985665005503 ATP binding site [chemical binding]; other site 985665005504 Q-loop/lid; other site 985665005505 ABC transporter signature motif; other site 985665005506 Walker B; other site 985665005507 D-loop; other site 985665005508 H-loop/switch region; other site 985665005509 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985665005510 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665005511 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 985665005512 DNA binding residues [nucleotide binding] 985665005513 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665005514 Coenzyme A binding pocket [chemical binding]; other site 985665005515 pyruvate phosphate dikinase; Provisional; Region: PRK09279 985665005516 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 985665005517 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 985665005518 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 985665005519 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665005520 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665005521 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 985665005522 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 985665005523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665005524 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 985665005525 dimerization interface [polypeptide binding]; other site 985665005526 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 985665005527 dimer interface [polypeptide binding]; other site 985665005528 phosphorylation site [posttranslational modification] 985665005529 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665005530 ATP binding site [chemical binding]; other site 985665005531 Mg2+ binding site [ion binding]; other site 985665005532 G-X-G motif; other site 985665005533 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665005534 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665005535 active site 985665005536 phosphorylation site [posttranslational modification] 985665005537 intermolecular recognition site; other site 985665005538 dimerization interface [polypeptide binding]; other site 985665005539 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 985665005540 DNA binding site [nucleotide binding] 985665005541 Cupin domain; Region: Cupin_2; pfam07883 985665005542 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665005543 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665005544 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665005545 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665005546 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665005547 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 985665005548 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 985665005549 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 985665005550 active site 985665005551 zinc binding site [ion binding]; other site 985665005552 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665005553 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985665005554 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 985665005555 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665005556 putative substrate translocation pore; other site 985665005557 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 985665005558 active site 985665005559 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665005560 catalytic tetrad [active] 985665005561 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665005562 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665005563 DNA binding site [nucleotide binding] 985665005564 domain linker motif; other site 985665005565 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 985665005566 dimerization interface [polypeptide binding]; other site 985665005567 ligand binding site [chemical binding]; other site 985665005568 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 985665005569 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 985665005570 substrate binding [chemical binding]; other site 985665005571 active site 985665005572 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 985665005573 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 985665005574 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 985665005575 active site turn [active] 985665005576 phosphorylation site [posttranslational modification] 985665005577 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665005578 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 985665005579 non-specific DNA binding site [nucleotide binding]; other site 985665005580 salt bridge; other site 985665005581 sequence-specific DNA binding site [nucleotide binding]; other site 985665005582 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665005583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665005584 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 985665005585 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 985665005586 domain interfaces; other site 985665005587 active site 985665005588 Spore germination protein; Region: Spore_permease; cl17796 985665005589 Spore germination protein; Region: Spore_permease; cl17796 985665005590 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 985665005591 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 985665005592 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 985665005593 Protein of unknown function (DUF805); Region: DUF805; pfam05656 985665005594 Predicted transcriptional regulator [Transcription]; Region: COG2378 985665005595 HTH domain; Region: HTH_11; pfam08279 985665005596 WYL domain; Region: WYL; pfam13280 985665005597 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 985665005598 hydrophobic ligand binding site; other site 985665005599 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 985665005600 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 985665005601 substrate binding site [chemical binding]; other site 985665005602 active site 985665005603 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 985665005604 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 985665005605 DNA-binding site [nucleotide binding]; DNA binding site 985665005606 RNA-binding motif; other site 985665005607 Cold-inducible protein YdjO; Region: YdjO; pfam14169 985665005608 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 985665005609 Predicted transcriptional regulators [Transcription]; Region: COG1725 985665005610 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665005611 DNA-binding site [nucleotide binding]; DNA binding site 985665005612 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 985665005613 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 985665005614 Walker A/P-loop; other site 985665005615 ATP binding site [chemical binding]; other site 985665005616 Q-loop/lid; other site 985665005617 ABC transporter signature motif; other site 985665005618 Walker B; other site 985665005619 D-loop; other site 985665005620 H-loop/switch region; other site 985665005621 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 985665005622 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 985665005623 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665005624 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 985665005625 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 985665005626 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665005627 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665005628 DNA binding site [nucleotide binding] 985665005629 domain linker motif; other site 985665005630 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 985665005631 dimerization interface [polypeptide binding]; other site 985665005632 ligand binding site [chemical binding]; other site 985665005633 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 985665005634 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 985665005635 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 985665005636 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 985665005637 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665005638 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665005639 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 985665005640 dimer interface [polypeptide binding]; other site 985665005641 conserved gate region; other site 985665005642 putative PBP binding loops; other site 985665005643 ABC-ATPase subunit interface; other site 985665005644 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665005645 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 985665005646 dimer interface [polypeptide binding]; other site 985665005647 conserved gate region; other site 985665005648 putative PBP binding loops; other site 985665005649 ABC-ATPase subunit interface; other site 985665005650 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 985665005651 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 985665005652 FeS/SAM binding site; other site 985665005653 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 985665005654 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985665005655 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 985665005656 Walker A/P-loop; other site 985665005657 ATP binding site [chemical binding]; other site 985665005658 Q-loop/lid; other site 985665005659 ABC transporter signature motif; other site 985665005660 Walker B; other site 985665005661 D-loop; other site 985665005662 H-loop/switch region; other site 985665005663 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665005664 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665005665 Walker A/P-loop; other site 985665005666 ATP binding site [chemical binding]; other site 985665005667 Q-loop/lid; other site 985665005668 ABC transporter signature motif; other site 985665005669 Walker B; other site 985665005670 D-loop; other site 985665005671 H-loop/switch region; other site 985665005672 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 985665005673 peptide maturation system protein, TIGR04066 family; Region: nat_prod_clost 985665005674 peptide maturation system protein, TIGR04066 family; Region: nat_prod_clost 985665005675 peptide maturation system acyl carrier-related protein; Region: ocin_ACP_rel; TIGR04069 985665005676 Peptidase S8 family domain, uncharacterized subfamily 8; Region: Peptidases_S8_8; cd07492 985665005677 active site 985665005678 catalytic triad [active] 985665005679 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 985665005680 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 985665005681 Sulfatase; Region: Sulfatase; pfam00884 985665005682 Sulfatase; Region: Sulfatase; cl17466 985665005683 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665005684 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665005685 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 985665005686 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665005687 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665005688 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 985665005689 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665005690 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665005691 DNA binding site [nucleotide binding] 985665005692 domain linker motif; other site 985665005693 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 985665005694 ligand binding site [chemical binding]; other site 985665005695 dimerization interface [polypeptide binding]; other site 985665005696 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 985665005697 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 985665005698 HSP90 family protein; Provisional; Region: PRK14083 985665005699 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665005700 ATP binding site [chemical binding]; other site 985665005701 Mg2+ binding site [ion binding]; other site 985665005702 G-X-G motif; other site 985665005703 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 985665005704 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 985665005705 active site 985665005706 catalytic site [active] 985665005707 metal binding site [ion binding]; metal-binding site 985665005708 dimer interface [polypeptide binding]; other site 985665005709 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 985665005710 S-adenosylmethionine binding site [chemical binding]; other site 985665005711 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 985665005712 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 985665005713 active site 985665005714 tetramer interface; other site 985665005715 Predicted membrane protein [Function unknown]; Region: COG2246 985665005716 GtrA-like protein; Region: GtrA; pfam04138 985665005717 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 985665005718 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 985665005719 Ligand binding site; other site 985665005720 Putative Catalytic site; other site 985665005721 DXD motif; other site 985665005722 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 985665005723 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 985665005724 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665005725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665005726 active site 985665005727 phosphorylation site [posttranslational modification] 985665005728 intermolecular recognition site; other site 985665005729 dimerization interface [polypeptide binding]; other site 985665005730 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 985665005731 DNA binding site [nucleotide binding] 985665005732 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665005733 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 985665005734 dimerization interface [polypeptide binding]; other site 985665005735 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 985665005736 dimer interface [polypeptide binding]; other site 985665005737 phosphorylation site [posttranslational modification] 985665005738 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665005739 ATP binding site [chemical binding]; other site 985665005740 Mg2+ binding site [ion binding]; other site 985665005741 G-X-G motif; other site 985665005742 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 985665005743 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 985665005744 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 985665005745 putative active site [active] 985665005746 catalytic triad [active] 985665005747 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 985665005748 putative integrin binding motif; other site 985665005749 PA/protease domain interface [polypeptide binding]; other site 985665005750 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 985665005751 S-layer homology domain; Region: SLH; pfam00395 985665005752 S-layer homology domain; Region: SLH; pfam00395 985665005753 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 985665005754 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 985665005755 DHHA2 domain; Region: DHHA2; pfam02833 985665005756 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665005757 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985665005758 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 985665005759 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665005760 MarR family; Region: MarR; pfam01047 985665005761 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 985665005762 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 985665005763 active site 985665005764 DNA binding site [nucleotide binding] 985665005765 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 985665005766 DNA binding site [nucleotide binding] 985665005767 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 985665005768 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 985665005769 substrate binding pocket [chemical binding]; other site 985665005770 catalytic triad [active] 985665005771 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 985665005772 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 985665005773 active site 985665005774 catalytic site [active] 985665005775 substrate binding site [chemical binding]; other site 985665005776 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 985665005777 Radical SAM superfamily; Region: Radical_SAM; pfam04055 985665005778 FeS/SAM binding site; other site 985665005779 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665005780 Helix-turn-helix domain; Region: HTH_18; pfam12833 985665005781 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665005782 recombination factor protein RarA; Reviewed; Region: PRK13342 985665005783 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 985665005784 Walker A motif; other site 985665005785 ATP binding site [chemical binding]; other site 985665005786 Walker B motif; other site 985665005787 arginine finger; other site 985665005788 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 985665005789 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 985665005790 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 985665005791 short chain dehydrogenase; Provisional; Region: PRK06500 985665005792 classical (c) SDRs; Region: SDR_c; cd05233 985665005793 NAD(P) binding site [chemical binding]; other site 985665005794 active site 985665005795 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985665005796 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 985665005797 non-specific DNA binding site [nucleotide binding]; other site 985665005798 salt bridge; other site 985665005799 sequence-specific DNA binding site [nucleotide binding]; other site 985665005800 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665005801 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665005802 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 985665005803 HTH-like domain; Region: HTH_21; pfam13276 985665005804 Integrase core domain; Region: rve; pfam00665 985665005805 Integrase core domain; Region: rve_3; pfam13683 985665005806 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 985665005807 active site 985665005808 DNA binding site [nucleotide binding] 985665005809 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665005810 Coenzyme A binding pocket [chemical binding]; other site 985665005811 Predicted membrane protein [Function unknown]; Region: COG2322 985665005812 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665005813 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665005814 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665005815 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 985665005816 dimer interface [polypeptide binding]; other site 985665005817 conserved gate region; other site 985665005818 putative PBP binding loops; other site 985665005819 ABC-ATPase subunit interface; other site 985665005820 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665005821 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 985665005822 dimer interface [polypeptide binding]; other site 985665005823 conserved gate region; other site 985665005824 putative PBP binding loops; other site 985665005825 ABC-ATPase subunit interface; other site 985665005826 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 985665005827 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 985665005828 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 985665005829 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 985665005830 putative active site cavity [active] 985665005831 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985665005832 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 985665005833 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 985665005834 putative active site [active] 985665005835 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985665005836 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 985665005837 nucleotide binding site [chemical binding]; other site 985665005838 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 985665005839 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 985665005840 PAS domain; Region: PAS_9; pfam13426 985665005841 putative active site [active] 985665005842 heme pocket [chemical binding]; other site 985665005843 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 985665005844 Histidine kinase; Region: HisKA_3; pfam07730 985665005845 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665005846 ATP binding site [chemical binding]; other site 985665005847 Mg2+ binding site [ion binding]; other site 985665005848 G-X-G motif; other site 985665005849 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985665005850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665005851 active site 985665005852 phosphorylation site [posttranslational modification] 985665005853 intermolecular recognition site; other site 985665005854 dimerization interface [polypeptide binding]; other site 985665005855 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 985665005856 DNA binding residues [nucleotide binding] 985665005857 dimerization interface [polypeptide binding]; other site 985665005858 GAF domain; Region: GAF; cl17456 985665005859 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 985665005860 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 985665005861 ligand binding site [chemical binding]; other site 985665005862 flexible hinge region; other site 985665005863 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 985665005864 putative switch regulator; other site 985665005865 non-specific DNA interactions [nucleotide binding]; other site 985665005866 DNA binding site [nucleotide binding] 985665005867 sequence specific DNA binding site [nucleotide binding]; other site 985665005868 putative cAMP binding site [chemical binding]; other site 985665005869 A domain family that is part of the cupin metalloenzyme superfamily; Region: JmjC; smart00558 985665005870 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665005871 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665005872 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 985665005873 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 985665005874 dimer interface [polypeptide binding]; other site 985665005875 conserved gate region; other site 985665005876 putative PBP binding loops; other site 985665005877 ABC-ATPase subunit interface; other site 985665005878 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665005879 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 985665005880 dimer interface [polypeptide binding]; other site 985665005881 conserved gate region; other site 985665005882 putative PBP binding loops; other site 985665005883 ABC-ATPase subunit interface; other site 985665005884 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665005885 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 985665005886 dimerization interface [polypeptide binding]; other site 985665005887 Histidine kinase; Region: His_kinase; pfam06580 985665005888 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665005889 ATP binding site [chemical binding]; other site 985665005890 Mg2+ binding site [ion binding]; other site 985665005891 G-X-G motif; other site 985665005892 Response regulator receiver domain; Region: Response_reg; pfam00072 985665005893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665005894 active site 985665005895 phosphorylation site [posttranslational modification] 985665005896 intermolecular recognition site; other site 985665005897 dimerization interface [polypeptide binding]; other site 985665005898 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665005899 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665005900 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665005901 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665005902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665005903 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 985665005904 dimerization interface [polypeptide binding]; other site 985665005905 aromatic acid decarboxylase; Validated; Region: PRK05920 985665005906 Flavoprotein; Region: Flavoprotein; pfam02441 985665005907 UbiD family decarboxylase; Region: TIGR00148 985665005908 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 985665005909 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 985665005910 Beta-lactamase; Region: Beta-lactamase; pfam00144 985665005911 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 985665005912 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 985665005913 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 985665005914 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 985665005915 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 985665005916 ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-like; cd04879 985665005917 L-serine binding site [chemical binding]; other site 985665005918 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 985665005919 dimer interface [polypeptide binding]; other site 985665005920 conserved gate region; other site 985665005921 putative PBP binding loops; other site 985665005922 ABC-ATPase subunit interface; other site 985665005923 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 985665005924 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 985665005925 dimer interface [polypeptide binding]; other site 985665005926 conserved gate region; other site 985665005927 putative PBP binding loops; other site 985665005928 ABC-ATPase subunit interface; other site 985665005929 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 985665005930 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 985665005931 substrate binding pocket [chemical binding]; other site 985665005932 membrane-bound complex binding site; other site 985665005933 hinge residues; other site 985665005934 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985665005935 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 985665005936 Walker A/P-loop; other site 985665005937 ATP binding site [chemical binding]; other site 985665005938 Q-loop/lid; other site 985665005939 ABC transporter signature motif; other site 985665005940 Walker B; other site 985665005941 D-loop; other site 985665005942 H-loop/switch region; other site 985665005943 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 985665005944 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 985665005945 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 985665005946 metal binding site [ion binding]; metal-binding site 985665005947 active site 985665005948 I-site; other site 985665005949 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_5; cd06166 985665005950 active site 985665005951 catalytic site [active] 985665005952 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 985665005953 Collagen binding domain; Region: Collagen_bind; pfam05737 985665005954 Collagen binding domain; Region: Collagen_bind; pfam05737 985665005955 Collagen binding domain; Region: Collagen_bind; pfam05737 985665005956 Collagen binding domain; Region: Collagen_bind; pfam05737 985665005957 Collagen binding domain; Region: Collagen_bind; pfam05737 985665005958 Cna protein B-type domain; Region: Cna_B; pfam05738 985665005959 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 985665005960 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 985665005961 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 985665005962 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665005963 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665005964 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665005965 Protein of unknown function (DUF445); Region: DUF445; pfam04286 985665005966 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 985665005967 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 985665005968 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665005969 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 985665005970 dimer interface [polypeptide binding]; other site 985665005971 phosphorylation site [posttranslational modification] 985665005972 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665005973 ATP binding site [chemical binding]; other site 985665005974 Mg2+ binding site [ion binding]; other site 985665005975 G-X-G motif; other site 985665005976 Response regulator receiver domain; Region: Response_reg; pfam00072 985665005977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665005978 active site 985665005979 phosphorylation site [posttranslational modification] 985665005980 intermolecular recognition site; other site 985665005981 dimerization interface [polypeptide binding]; other site 985665005982 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665005983 Histidine kinase; Region: His_kinase; pfam06580 985665005984 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665005985 ATP binding site [chemical binding]; other site 985665005986 Mg2+ binding site [ion binding]; other site 985665005987 G-X-G motif; other site 985665005988 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 985665005989 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665005990 active site 985665005991 phosphorylation site [posttranslational modification] 985665005992 intermolecular recognition site; other site 985665005993 dimerization interface [polypeptide binding]; other site 985665005994 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; cl17355 985665005995 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 985665005996 dimer interface [polypeptide binding]; other site 985665005997 FMN binding site [chemical binding]; other site 985665005998 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665005999 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985665006000 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665006001 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 985665006002 active site 985665006003 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 985665006004 CopC domain; Region: CopC; pfam04234 985665006005 Copper resistance protein D; Region: CopD; cl00563 985665006006 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 985665006007 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 985665006008 metal binding site [ion binding]; metal-binding site 985665006009 active site 985665006010 I-site; other site 985665006011 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 985665006012 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665006013 Zn2+ binding site [ion binding]; other site 985665006014 Mg2+ binding site [ion binding]; other site 985665006015 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 985665006016 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665006017 putative substrate translocation pore; other site 985665006018 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 985665006019 putative homodimer interface [polypeptide binding]; other site 985665006020 putative homotetramer interface [polypeptide binding]; other site 985665006021 allosteric switch controlling residues; other site 985665006022 putative metal binding site [ion binding]; other site 985665006023 putative homodimer-homodimer interface [polypeptide binding]; other site 985665006024 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 985665006025 metal-binding site [ion binding] 985665006026 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 985665006027 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 985665006028 metal-binding site [ion binding] 985665006029 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 985665006030 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 985665006031 metal-binding site [ion binding] 985665006032 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 985665006033 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 985665006034 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 985665006035 dimer interface [polypeptide binding]; other site 985665006036 FMN binding site [chemical binding]; other site 985665006037 NADPH bind site [chemical binding]; other site 985665006038 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 985665006039 active site 985665006040 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 985665006041 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 985665006042 Walker A/P-loop; other site 985665006043 ATP binding site [chemical binding]; other site 985665006044 Q-loop/lid; other site 985665006045 ABC transporter signature motif; other site 985665006046 Walker B; other site 985665006047 D-loop; other site 985665006048 H-loop/switch region; other site 985665006049 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 985665006050 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 985665006051 dimer interface [polypeptide binding]; other site 985665006052 conserved gate region; other site 985665006053 putative PBP binding loops; other site 985665006054 ABC-ATPase subunit interface; other site 985665006055 Domain of unknown function DUF77; Region: DUF77; pfam01910 985665006056 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 985665006057 NMT1/THI5 like; Region: NMT1; pfam09084 985665006058 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 985665006059 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 985665006060 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 985665006061 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 985665006062 active site 985665006063 metal binding site [ion binding]; metal-binding site 985665006064 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 985665006065 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 985665006066 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 985665006067 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 985665006068 putative NAD(P) binding site [chemical binding]; other site 985665006069 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 985665006070 Strictosidine synthase; Region: Str_synth; pfam03088 985665006071 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 985665006072 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665006073 NAD(P) binding site [chemical binding]; other site 985665006074 active site 985665006075 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 985665006076 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 985665006077 Ca binding site [ion binding]; other site 985665006078 active site 985665006079 catalytic site [active] 985665006080 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 985665006081 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 985665006082 NodB motif; other site 985665006083 active site 985665006084 catalytic site [active] 985665006085 Cd binding site [ion binding]; other site 985665006086 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 985665006087 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 985665006088 Walker A/P-loop; other site 985665006089 ATP binding site [chemical binding]; other site 985665006090 Q-loop/lid; other site 985665006091 ABC transporter signature motif; other site 985665006092 Walker B; other site 985665006093 D-loop; other site 985665006094 H-loop/switch region; other site 985665006095 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 985665006096 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 985665006097 dimer interface [polypeptide binding]; other site 985665006098 conserved gate region; other site 985665006099 ABC-ATPase subunit interface; other site 985665006100 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 985665006101 homodimer interface [polypeptide binding]; other site 985665006102 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 985665006103 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 985665006104 active site 985665006105 homodimer interface [polypeptide binding]; other site 985665006106 catalytic site [active] 985665006107 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 985665006108 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665006109 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665006110 active site 985665006111 phosphorylation site [posttranslational modification] 985665006112 intermolecular recognition site; other site 985665006113 dimerization interface [polypeptide binding]; other site 985665006114 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 985665006115 DNA binding site [nucleotide binding] 985665006116 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 985665006117 dimerization interface [polypeptide binding]; other site 985665006118 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665006119 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 985665006120 dimer interface [polypeptide binding]; other site 985665006121 phosphorylation site [posttranslational modification] 985665006122 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665006123 ATP binding site [chemical binding]; other site 985665006124 Mg2+ binding site [ion binding]; other site 985665006125 G-X-G motif; other site 985665006126 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985665006127 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 985665006128 Walker A/P-loop; other site 985665006129 ATP binding site [chemical binding]; other site 985665006130 Q-loop/lid; other site 985665006131 ABC transporter signature motif; other site 985665006132 Walker B; other site 985665006133 D-loop; other site 985665006134 H-loop/switch region; other site 985665006135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 985665006136 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 985665006137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 985665006138 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 985665006139 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 985665006140 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 985665006141 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985665006142 NAD binding site [chemical binding]; other site 985665006143 dimer interface [polypeptide binding]; other site 985665006144 substrate binding site [chemical binding]; other site 985665006145 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 985665006146 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 985665006147 DNA binding residues [nucleotide binding] 985665006148 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 985665006149 Catalytic domain of Protein Kinases; Region: PKc; cd00180 985665006150 active site 985665006151 ATP binding site [chemical binding]; other site 985665006152 substrate binding site [chemical binding]; other site 985665006153 activation loop (A-loop); other site 985665006154 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 985665006155 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 985665006156 N- and C-terminal domain interface [polypeptide binding]; other site 985665006157 active site 985665006158 catalytic site [active] 985665006159 metal binding site [ion binding]; metal-binding site 985665006160 carbohydrate binding site [chemical binding]; other site 985665006161 ATP binding site [chemical binding]; other site 985665006162 fructuronate transporter; Provisional; Region: PRK10034; cl15264 985665006163 Transcriptional regulators [Transcription]; Region: GntR; COG1802 985665006164 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665006165 DNA-binding site [nucleotide binding]; DNA binding site 985665006166 FCD domain; Region: FCD; pfam07729 985665006167 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 985665006168 active site 985665006169 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 985665006170 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 985665006171 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 985665006172 non-specific DNA binding site [nucleotide binding]; other site 985665006173 salt bridge; other site 985665006174 sequence-specific DNA binding site [nucleotide binding]; other site 985665006175 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665006176 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 985665006177 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 985665006178 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 985665006179 dimer interface [polypeptide binding]; other site 985665006180 FMN binding site [chemical binding]; other site 985665006181 Predicted integral membrane protein [Function unknown]; Region: COG0392 985665006182 Uncharacterized conserved protein [Function unknown]; Region: COG2898 985665006183 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 985665006184 Predicted ATPase [General function prediction only]; Region: COG3910 985665006185 ATP-binding cassette domain of non-transporter proteins; Region: ABC_Class2; cd03227 985665006186 Walker A/P-loop; other site 985665006187 ATP binding site [chemical binding]; other site 985665006188 Q-loop/lid; other site 985665006189 ABC transporter signature motif; other site 985665006190 Walker B; other site 985665006191 D-loop; other site 985665006192 H-loop/switch region; other site 985665006193 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665006194 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665006195 putative substrate translocation pore; other site 985665006196 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 985665006197 Predicted transcriptional regulator [Transcription]; Region: COG4189 985665006198 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 985665006199 putative DNA binding site [nucleotide binding]; other site 985665006200 dimerization interface [polypeptide binding]; other site 985665006201 putative Zn2+ binding site [ion binding]; other site 985665006202 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 985665006203 NADH(P)-binding; Region: NAD_binding_10; pfam13460 985665006204 NAD binding site [chemical binding]; other site 985665006205 putative active site [active] 985665006206 substrate binding site [chemical binding]; other site 985665006207 Uncharacterized conserved protein [Function unknown]; Region: COG0062 985665006208 putative carbohydrate kinase; Provisional; Region: PRK10565 985665006209 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 985665006210 putative substrate binding site [chemical binding]; other site 985665006211 putative ATP binding site [chemical binding]; other site 985665006212 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 985665006213 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 985665006214 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 985665006215 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 985665006216 dimer interface [polypeptide binding]; other site 985665006217 active site 985665006218 CoA binding pocket [chemical binding]; other site 985665006219 MarR family; Region: MarR_2; cl17246 985665006220 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 985665006221 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 985665006222 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 985665006223 dimer interface [polypeptide binding]; other site 985665006224 putative radical transfer pathway; other site 985665006225 diiron center [ion binding]; other site 985665006226 tyrosyl radical; other site 985665006227 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 985665006228 ATP cone domain; Region: ATP-cone; pfam03477 985665006229 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 985665006230 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 985665006231 Domain of unknown function DUF77; Region: DUF77; pfam01910 985665006232 Holin family; Region: Phage_holin_4; cl01989 985665006233 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 985665006234 SPRY domain-like in bacteria; Region: SPRY_like; cd12886 985665006235 Bacterial Ig-like domain; Region: Big_5; pfam13205 985665006236 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 985665006237 Interdomain contacts; other site 985665006238 Cytokine receptor motif; other site 985665006239 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 985665006240 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 985665006241 active site 985665006242 SPRY domain-like in bacteria; Region: SPRY_like; cd12886 985665006243 Dienelactone hydrolase family; Region: DLH; pfam01738 985665006244 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 985665006245 nucleophilic elbow; other site 985665006246 catalytic triad; other site 985665006247 Propionate catabolism activator; Region: PrpR_N; pfam06506 985665006248 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 985665006249 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 985665006250 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 985665006251 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 985665006252 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 985665006253 inhibitor site; inhibition site 985665006254 active site 985665006255 dimer interface [polypeptide binding]; other site 985665006256 catalytic residue [active] 985665006257 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 985665006258 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 985665006259 putative active site [active] 985665006260 metal binding site [ion binding]; metal-binding site 985665006261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 985665006262 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 985665006263 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 985665006264 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 985665006265 Na binding site [ion binding]; other site 985665006266 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 985665006267 BNR repeat-like domain; Region: BNR_2; pfam13088 985665006268 Domain of unknown function (DUF386); Region: DUF386; cl01047 985665006269 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 985665006270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665006271 NAD(P) binding site [chemical binding]; other site 985665006272 active site 985665006273 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 985665006274 dimerization interface [polypeptide binding]; other site 985665006275 putative DNA binding site [nucleotide binding]; other site 985665006276 putative Zn2+ binding site [ion binding]; other site 985665006277 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 985665006278 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08248 985665006279 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 985665006280 homodimer interface [polypeptide binding]; other site 985665006281 substrate-cofactor binding pocket; other site 985665006282 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665006283 catalytic residue [active] 985665006284 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 985665006285 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665006286 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 985665006287 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 985665006288 dimer interface [polypeptide binding]; other site 985665006289 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985665006290 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985665006291 MarR family; Region: MarR_2; pfam12802 985665006292 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 985665006293 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 985665006294 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 985665006295 dimerization interface [polypeptide binding]; other site 985665006296 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 985665006297 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665006298 Zn2+ binding site [ion binding]; other site 985665006299 Mg2+ binding site [ion binding]; other site 985665006300 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 985665006301 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665006302 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 985665006303 dimer interface [polypeptide binding]; other site 985665006304 phosphorylation site [posttranslational modification] 985665006305 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665006306 ATP binding site [chemical binding]; other site 985665006307 Mg2+ binding site [ion binding]; other site 985665006308 G-X-G motif; other site 985665006309 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 985665006310 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 985665006311 NAD binding site [chemical binding]; other site 985665006312 active site 985665006313 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 985665006314 homotrimer interaction site [polypeptide binding]; other site 985665006315 putative active site [active] 985665006316 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 985665006317 Sodium Bile acid symporter family; Region: SBF; cl17470 985665006318 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985665006319 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 985665006320 putative active site [active] 985665006321 putative FMN binding site [chemical binding]; other site 985665006322 putative substrate binding site [chemical binding]; other site 985665006323 putative catalytic residue [active] 985665006324 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985665006325 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985665006326 Response regulator receiver domain; Region: Response_reg; pfam00072 985665006327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665006328 active site 985665006329 phosphorylation site [posttranslational modification] 985665006330 intermolecular recognition site; other site 985665006331 dimerization interface [polypeptide binding]; other site 985665006332 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665006333 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665006334 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665006335 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665006336 Cache domain; Region: Cache_1; pfam02743 985665006337 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 985665006338 dimerization interface [polypeptide binding]; other site 985665006339 Histidine kinase; Region: His_kinase; pfam06580 985665006340 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665006341 ATP binding site [chemical binding]; other site 985665006342 Mg2+ binding site [ion binding]; other site 985665006343 G-X-G motif; other site 985665006344 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665006345 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 985665006346 dimer interface [polypeptide binding]; other site 985665006347 conserved gate region; other site 985665006348 putative PBP binding loops; other site 985665006349 ABC-ATPase subunit interface; other site 985665006350 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665006351 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 985665006352 dimer interface [polypeptide binding]; other site 985665006353 conserved gate region; other site 985665006354 putative PBP binding loops; other site 985665006355 ABC-ATPase subunit interface; other site 985665006356 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665006357 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665006358 RibD C-terminal domain; Region: RibD_C; cl17279 985665006359 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 985665006360 Predicted transcriptional regulator [Transcription]; Region: COG2378 985665006361 HTH domain; Region: HTH_11; pfam08279 985665006362 WYL domain; Region: WYL; pfam13280 985665006363 SNF2 Helicase protein; Region: DUF3670; pfam12419 985665006364 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 985665006365 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 985665006366 ATP binding site [chemical binding]; other site 985665006367 putative Mg++ binding site [ion binding]; other site 985665006368 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 985665006369 nucleotide binding region [chemical binding]; other site 985665006370 ATP-binding site [chemical binding]; other site 985665006371 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 985665006372 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 985665006373 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 985665006374 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 985665006375 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 985665006376 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665006377 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665006378 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 985665006379 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 985665006380 putative NADH binding site [chemical binding]; other site 985665006381 putative active site [active] 985665006382 nudix motif; other site 985665006383 putative metal binding site [ion binding]; other site 985665006384 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665006385 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665006386 putative substrate translocation pore; other site 985665006387 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665006388 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665006389 MarR family; Region: MarR_2; pfam12802 985665006390 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 985665006391 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 985665006392 active site 985665006393 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 985665006394 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 985665006395 classical (c) SDRs; Region: SDR_c; cd05233 985665006396 NAD(P) binding site [chemical binding]; other site 985665006397 active site 985665006398 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 985665006399 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665006400 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 985665006401 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 985665006402 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 985665006403 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 985665006404 active site 985665006405 dimer interface [polypeptide binding]; other site 985665006406 motif 1; other site 985665006407 motif 2; other site 985665006408 motif 3; other site 985665006409 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 985665006410 anticodon binding site; other site 985665006411 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 985665006412 synthetase active site [active] 985665006413 NTP binding site [chemical binding]; other site 985665006414 metal binding site [ion binding]; metal-binding site 985665006415 S-ribosylhomocysteinase; Provisional; Region: PRK02260 985665006416 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 985665006417 classical (c) SDRs; Region: SDR_c; cd05233 985665006418 NAD(P) binding site [chemical binding]; other site 985665006419 active site 985665006420 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 985665006421 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985665006422 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 985665006423 nucleotide binding site [chemical binding]; other site 985665006424 Glucuronate isomerase; Region: UxaC; pfam02614 985665006425 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 985665006426 beta-D-glucuronidase; Provisional; Region: PRK10150 985665006427 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 985665006428 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 985665006429 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 985665006430 MFS/sugar transport protein; Region: MFS_2; pfam13347 985665006431 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665006432 VanZ like family; Region: VanZ; pfam04892 985665006433 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 985665006434 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 985665006435 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 985665006436 D-mannonate oxidoreductase; Provisional; Region: PRK08277 985665006437 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 985665006438 putative NAD(P) binding site [chemical binding]; other site 985665006439 active site 985665006440 mannonate dehydratase; Provisional; Region: PRK03906 985665006441 mannonate dehydratase; Region: uxuA; TIGR00695 985665006442 Transcriptional regulators [Transcription]; Region: GntR; COG1802 985665006443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665006444 DNA-binding site [nucleotide binding]; DNA binding site 985665006445 FCD domain; Region: FCD; pfam07729 985665006446 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 985665006447 Part of AAA domain; Region: AAA_19; pfam13245 985665006448 Family description; Region: UvrD_C_2; pfam13538 985665006449 Cold-inducible protein YdjO; Region: YdjO; pfam14169 985665006450 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 985665006451 Predicted transcriptional regulators [Transcription]; Region: COG1378 985665006452 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 985665006453 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 985665006454 C-terminal domain interface [polypeptide binding]; other site 985665006455 sugar binding site [chemical binding]; other site 985665006456 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 985665006457 nudix motif; other site 985665006458 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 985665006459 catalytic core [active] 985665006460 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 985665006461 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 985665006462 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 985665006463 Uncharacterized conserved protein [Function unknown]; Region: COG2128 985665006464 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 985665006465 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665006466 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 985665006467 DNA binding residues [nucleotide binding] 985665006468 Predicted membrane protein [Function unknown]; Region: COG4818 985665006469 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 985665006470 conserved cys residue [active] 985665006471 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 985665006472 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 985665006473 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 985665006474 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 985665006475 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 985665006476 active site 985665006477 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 985665006478 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665006479 Coenzyme A binding pocket [chemical binding]; other site 985665006480 Uncharacterized conserved protein [Function unknown]; Region: COG2461 985665006481 Family of unknown function (DUF438); Region: DUF438; pfam04282 985665006482 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 985665006483 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 985665006484 Predicted transcriptional regulators [Transcription]; Region: COG1725 985665006485 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665006486 DNA-binding site [nucleotide binding]; DNA binding site 985665006487 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985665006488 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 985665006489 Walker A/P-loop; other site 985665006490 ATP binding site [chemical binding]; other site 985665006491 Q-loop/lid; other site 985665006492 ABC transporter signature motif; other site 985665006493 Walker B; other site 985665006494 D-loop; other site 985665006495 H-loop/switch region; other site 985665006496 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 985665006497 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665006498 Walker A/P-loop; other site 985665006499 ATP binding site [chemical binding]; other site 985665006500 Q-loop/lid; other site 985665006501 ABC transporter signature motif; other site 985665006502 Walker B; other site 985665006503 D-loop; other site 985665006504 H-loop/switch region; other site 985665006505 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 985665006506 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 985665006507 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 985665006508 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665006509 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665006510 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 985665006511 putative dimerization interface [polypeptide binding]; other site 985665006512 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665006513 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665006514 putative substrate translocation pore; other site 985665006515 Nitronate monooxygenase; Region: NMO; pfam03060 985665006516 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 985665006517 FMN binding site [chemical binding]; other site 985665006518 substrate binding site [chemical binding]; other site 985665006519 putative catalytic residue [active] 985665006520 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665006521 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665006522 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 985665006523 dimerization interface [polypeptide binding]; other site 985665006524 Protein of unknown function, DUF606; Region: DUF606; pfam04657 985665006525 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 985665006526 beta-galactosidase; Region: BGL; TIGR03356 985665006527 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 985665006528 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 985665006529 active site turn [active] 985665006530 phosphorylation site [posttranslational modification] 985665006531 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665006532 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985665006533 HPr interaction site; other site 985665006534 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665006535 active site 985665006536 phosphorylation site [posttranslational modification] 985665006537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665006538 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665006539 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 985665006540 putative dimerization interface [polypeptide binding]; other site 985665006541 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 985665006542 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 985665006543 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 985665006544 MarR family; Region: MarR_2; cl17246 985665006545 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 985665006546 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 985665006547 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 985665006548 active site 985665006549 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985665006550 HTH domain; Region: HTH_11; cl17392 985665006551 PRD domain; Region: PRD; pfam00874 985665006552 PRD domain; Region: PRD; pfam00874 985665006553 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 985665006554 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 985665006555 active site 985665006556 phosphorylation site [posttranslational modification] 985665006557 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 985665006558 active site 985665006559 P-loop; other site 985665006560 phosphorylation site [posttranslational modification] 985665006561 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 985665006562 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 985665006563 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 985665006564 active site 985665006565 methionine cluster; other site 985665006566 phosphorylation site [posttranslational modification] 985665006567 metal binding site [ion binding]; metal-binding site 985665006568 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 985665006569 beta-galactosidase; Region: BGL; TIGR03356 985665006570 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 985665006571 dimerization domain swap beta strand [polypeptide binding]; other site 985665006572 regulatory protein interface [polypeptide binding]; other site 985665006573 active site 985665006574 regulatory phosphorylation site [posttranslational modification]; other site 985665006575 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 985665006576 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 985665006577 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 985665006578 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 985665006579 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 985665006580 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 985665006581 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 985665006582 DNA binding residues [nucleotide binding] 985665006583 putative dimer interface [polypeptide binding]; other site 985665006584 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 985665006585 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 985665006586 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665006587 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665006588 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985665006589 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 985665006590 putative active site [active] 985665006591 putative FMN binding site [chemical binding]; other site 985665006592 putative substrate binding site [chemical binding]; other site 985665006593 putative catalytic residue [active] 985665006594 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 985665006595 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665006596 active site 985665006597 catalytic tetrad [active] 985665006598 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665006599 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665006600 classical (c) SDRs; Region: SDR_c; cd05233 985665006601 NAD(P) binding site [chemical binding]; other site 985665006602 active site 985665006603 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985665006604 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 985665006605 FMN binding site [chemical binding]; other site 985665006606 active site 985665006607 substrate binding site [chemical binding]; other site 985665006608 catalytic residue [active] 985665006609 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 985665006610 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 985665006611 putative NAD(P) binding site [chemical binding]; other site 985665006612 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665006613 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665006614 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 985665006615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665006616 NAD(P) binding site [chemical binding]; other site 985665006617 active site 985665006618 potential frameshift: common BLAST hit: gi|310643206|ref|YP_003947964.1| oxidoreductase 985665006619 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 985665006620 Sodium Bile acid symporter family; Region: SBF; cl17470 985665006621 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665006622 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665006623 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665006624 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 985665006625 binding surface 985665006626 TPR motif; other site 985665006627 Tetratricopeptide repeat; Region: TPR_12; pfam13424 985665006628 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 985665006629 binding surface 985665006630 TPR motif; other site 985665006631 Tetratricopeptide repeat; Region: TPR_16; pfam13432 985665006632 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 985665006633 binding surface 985665006634 TPR motif; other site 985665006635 TPR repeat; Region: TPR_11; pfam13414 985665006636 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 985665006637 binding surface 985665006638 TPR motif; other site 985665006639 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 985665006640 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 985665006641 Beta-galactosidase, domain 2; Region: BetaGal_dom2; smart01029 985665006642 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 985665006643 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 985665006644 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665006645 active site 985665006646 phosphorylation site [posttranslational modification] 985665006647 intermolecular recognition site; other site 985665006648 dimerization interface [polypeptide binding]; other site 985665006649 LytTr DNA-binding domain; Region: LytTR; pfam04397 985665006650 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 985665006651 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 985665006652 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 985665006653 Beta-lactamase; Region: Beta-lactamase; pfam00144 985665006654 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 985665006655 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 985665006656 Spore germination protein; Region: Spore_permease; pfam03845 985665006657 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 985665006658 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665006659 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665006660 DNA binding site [nucleotide binding] 985665006661 domain linker motif; other site 985665006662 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 985665006663 dimerization interface [polypeptide binding]; other site 985665006664 ligand binding site [chemical binding]; other site 985665006665 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 985665006666 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 985665006667 substrate binding site [chemical binding]; other site 985665006668 hexamer interface [polypeptide binding]; other site 985665006669 metal binding site [ion binding]; metal-binding site 985665006670 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 985665006671 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 985665006672 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 985665006673 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 985665006674 active site turn [active] 985665006675 phosphorylation site [posttranslational modification] 985665006676 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665006677 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 985665006678 HPr interaction site; other site 985665006679 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665006680 active site 985665006681 phosphorylation site [posttranslational modification] 985665006682 Asp23 family; Region: Asp23; pfam03780 985665006683 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665006684 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665006685 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 985665006686 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665006687 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 985665006688 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 985665006689 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 985665006690 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 985665006691 iron-sulfur cluster [ion binding]; other site 985665006692 [2Fe-2S] cluster binding site [ion binding]; other site 985665006693 BclB C-terminal domain; Region: exospore_TM; TIGR03721 985665006694 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 985665006695 sugar binding site [chemical binding]; other site 985665006696 S-layer homology domain; Region: SLH; pfam00395 985665006697 S-layer homology domain; Region: SLH; pfam00395 985665006698 S-layer homology domain; Region: SLH; pfam00395 985665006699 Phage Tail Collar Domain; Region: Collar; pfam07484 985665006700 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 985665006701 Spore germination protein; Region: Spore_permease; pfam03845 985665006702 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 985665006703 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 985665006704 Predicted transcriptional regulators [Transcription]; Region: COG1695 985665006705 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 985665006706 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 985665006707 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 985665006708 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985665006709 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665006710 putative substrate translocation pore; other site 985665006711 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 985665006712 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 985665006713 putative DNA binding site [nucleotide binding]; other site 985665006714 putative Zn2+ binding site [ion binding]; other site 985665006715 AsnC family; Region: AsnC_trans_reg; pfam01037 985665006716 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665006717 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985665006718 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 985665006719 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665006720 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665006721 active site 985665006722 phosphorylation site [posttranslational modification] 985665006723 intermolecular recognition site; other site 985665006724 dimerization interface [polypeptide binding]; other site 985665006725 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 985665006726 DNA binding site [nucleotide binding] 985665006727 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 985665006728 dimerization interface [polypeptide binding]; other site 985665006729 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 985665006730 dimer interface [polypeptide binding]; other site 985665006731 phosphorylation site [posttranslational modification] 985665006732 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665006733 ATP binding site [chemical binding]; other site 985665006734 Mg2+ binding site [ion binding]; other site 985665006735 G-X-G motif; other site 985665006736 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 985665006737 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 985665006738 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 985665006739 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 985665006740 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 985665006741 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 985665006742 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985665006743 Predicted flavoprotein [General function prediction only]; Region: COG0431 985665006744 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 985665006745 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 985665006746 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 985665006747 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 985665006748 oligomerization interface [polypeptide binding]; other site 985665006749 active site 985665006750 metal binding site [ion binding]; metal-binding site 985665006751 Protein of unknown function (DUF419); Region: DUF419; pfam04237 985665006752 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 985665006753 dimer interface [polypeptide binding]; other site 985665006754 FMN binding site [chemical binding]; other site 985665006755 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985665006756 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 985665006757 Zn binding site [ion binding]; other site 985665006758 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 985665006759 Zn binding site [ion binding]; other site 985665006760 SWIM zinc finger; Region: SWIM; pfam04434 985665006761 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 985665006762 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 985665006763 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 985665006764 ATP binding site [chemical binding]; other site 985665006765 putative Mg++ binding site [ion binding]; other site 985665006766 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 985665006767 nucleotide binding region [chemical binding]; other site 985665006768 ATP-binding site [chemical binding]; other site 985665006769 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 985665006770 nucleophilic elbow; other site 985665006771 catalytic triad; other site 985665006772 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 985665006773 Peptidase family M50; Region: Peptidase_M50; pfam02163 985665006774 active site 985665006775 putative substrate binding region [chemical binding]; other site 985665006776 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665006777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665006778 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665006779 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665006780 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 985665006781 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 985665006782 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 985665006783 HAMP domain; Region: HAMP; pfam00672 985665006784 Histidine kinase; Region: His_kinase; pfam06580 985665006785 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665006786 ATP binding site [chemical binding]; other site 985665006787 Mg2+ binding site [ion binding]; other site 985665006788 G-X-G motif; other site 985665006789 Response regulator receiver domain; Region: Response_reg; pfam00072 985665006790 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665006791 active site 985665006792 phosphorylation site [posttranslational modification] 985665006793 intermolecular recognition site; other site 985665006794 dimerization interface [polypeptide binding]; other site 985665006795 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665006796 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665006797 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665006798 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665006799 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665006800 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 985665006801 dimer interface [polypeptide binding]; other site 985665006802 conserved gate region; other site 985665006803 putative PBP binding loops; other site 985665006804 ABC-ATPase subunit interface; other site 985665006805 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665006806 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 985665006807 dimer interface [polypeptide binding]; other site 985665006808 conserved gate region; other site 985665006809 putative PBP binding loops; other site 985665006810 ABC-ATPase subunit interface; other site 985665006811 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 985665006812 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985665006813 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 985665006814 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 985665006815 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665006816 active site 985665006817 catalytic tetrad [active] 985665006818 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 985665006819 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 985665006820 DNA binding residues [nucleotide binding] 985665006821 putative dimer interface [polypeptide binding]; other site 985665006822 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 985665006823 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 985665006824 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665006825 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 985665006826 Peptidases of the G1 family and homologs that might lack peptidase activity; Region: Peptidase_G1_like; cl03371 985665006827 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665006828 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665006829 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 985665006830 non-specific DNA binding site [nucleotide binding]; other site 985665006831 salt bridge; other site 985665006832 sequence-specific DNA binding site [nucleotide binding]; other site 985665006833 Putative Ig domain; Region: He_PIG; pfam05345 985665006834 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 985665006835 calcium mediated ligand binding site; other site 985665006836 intermolecular salt bridges; other site 985665006837 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 985665006838 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 985665006839 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 985665006840 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 985665006841 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 985665006842 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 985665006843 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 985665006844 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665006845 DNA-binding site [nucleotide binding]; DNA binding site 985665006846 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 985665006847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665006848 homodimer interface [polypeptide binding]; other site 985665006849 catalytic residue [active] 985665006850 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 985665006851 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665006852 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665006853 potential frameshift: common BLAST hit: gi|310640193|ref|YP_003944951.1| transcriptional regulator 985665006854 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665006855 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665006856 putative substrate translocation pore; other site 985665006857 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 985665006858 Ligand Binding Site [chemical binding]; other site 985665006859 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 985665006860 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 985665006861 NAD(P) binding site [chemical binding]; other site 985665006862 catalytic residues [active] 985665006863 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 985665006864 Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains; Region: HGDH_LDH_like; cd12185 985665006865 putative ligand binding site [chemical binding]; other site 985665006866 putative NAD binding site [chemical binding]; other site 985665006867 catalytic site [active] 985665006868 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665006869 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665006870 DNA binding site [nucleotide binding] 985665006871 domain linker motif; other site 985665006872 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 985665006873 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 985665006874 tartrate dehydrogenase; Region: TTC; TIGR02089 985665006875 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 985665006876 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 985665006877 substrate binding site [chemical binding]; other site 985665006878 ligand binding site [chemical binding]; other site 985665006879 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 985665006880 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 985665006881 substrate binding site [chemical binding]; other site 985665006882 3-isopropylmalate dehydratase large subunit [Amino acid transport and metabolism]; Region: LeuC; COG0065 985665006883 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 985665006884 substrate binding site [chemical binding]; other site 985665006885 ligand binding site [chemical binding]; other site 985665006886 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 985665006887 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 985665006888 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 985665006889 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 985665006890 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 985665006891 salt bridge; other site 985665006892 non-specific DNA binding site [nucleotide binding]; other site 985665006893 sequence-specific DNA binding site [nucleotide binding]; other site 985665006894 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665006895 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 985665006896 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 985665006897 DNA binding residues [nucleotide binding] 985665006898 putative dimer interface [polypeptide binding]; other site 985665006899 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 985665006900 GAF domain; Region: GAF_2; pfam13185 985665006901 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985665006902 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 985665006903 Cobalt transport protein; Region: CbiQ; cl00463 985665006904 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 985665006905 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 985665006906 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 985665006907 Walker A/P-loop; other site 985665006908 ATP binding site [chemical binding]; other site 985665006909 Q-loop/lid; other site 985665006910 ABC transporter signature motif; other site 985665006911 Walker B; other site 985665006912 D-loop; other site 985665006913 H-loop/switch region; other site 985665006914 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 985665006915 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 985665006916 Walker A/P-loop; other site 985665006917 ATP binding site [chemical binding]; other site 985665006918 Q-loop/lid; other site 985665006919 ABC transporter signature motif; other site 985665006920 Walker B; other site 985665006921 D-loop; other site 985665006922 H-loop/switch region; other site 985665006923 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985665006924 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665006925 putative substrate translocation pore; other site 985665006926 Levansucrase/Invertase; Region: Glyco_hydro_68; pfam02435 985665006927 active site 985665006928 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 985665006929 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 985665006930 substrate binding [chemical binding]; other site 985665006931 active site 985665006932 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 985665006933 MarR family; Region: MarR_2; cl17246 985665006934 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665006935 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 985665006936 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 985665006937 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 985665006938 HI0933-like protein; Region: HI0933_like; pfam03486 985665006939 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985665006940 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 985665006941 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 985665006942 dimer interface [polypeptide binding]; other site 985665006943 phosphorylation site [posttranslational modification] 985665006944 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665006945 ATP binding site [chemical binding]; other site 985665006946 Mg2+ binding site [ion binding]; other site 985665006947 G-X-G motif; other site 985665006948 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 985665006949 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 985665006950 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 985665006951 homodimer interface [polypeptide binding]; other site 985665006952 NAD binding pocket [chemical binding]; other site 985665006953 ATP binding pocket [chemical binding]; other site 985665006954 Mg binding site [ion binding]; other site 985665006955 active-site loop [active] 985665006956 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 985665006957 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 985665006958 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 985665006959 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 985665006960 minor groove reading motif; other site 985665006961 helix-hairpin-helix signature motif; other site 985665006962 substrate binding pocket [chemical binding]; other site 985665006963 active site 985665006964 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 985665006965 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 985665006966 DNA binding and oxoG recognition site [nucleotide binding] 985665006967 AAA domain; Region: AAA_21; pfam13304 985665006968 putative alcohol dehydrogenase; Provisional; Region: PRK09860 985665006969 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 985665006970 dimer interface [polypeptide binding]; other site 985665006971 active site 985665006972 metal binding site [ion binding]; metal-binding site 985665006973 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665006974 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665006975 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665006976 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 985665006977 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 985665006978 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 985665006979 putative acetyltransferase; Provisional; Region: PRK03624 985665006980 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665006981 Coenzyme A binding pocket [chemical binding]; other site 985665006982 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 985665006983 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 985665006984 Catalytic site [active] 985665006985 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 985665006986 RNA/DNA hybrid binding site [nucleotide binding]; other site 985665006987 active site 985665006988 epoxyqueuosine reductase; Region: TIGR00276 985665006989 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 985665006990 HEAT repeats; Region: HEAT_2; pfam13646 985665006991 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 985665006992 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 985665006993 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 985665006994 DNA binding site [nucleotide binding] 985665006995 active site 985665006996 phosphodiesterase; Provisional; Region: PRK12704 985665006997 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 985665006998 homodecamer interface [polypeptide binding]; other site 985665006999 GTP cyclohydrolase I; Provisional; Region: PLN03044 985665007000 active site 985665007001 putative catalytic site residues [active] 985665007002 zinc binding site [ion binding]; other site 985665007003 GTP-CH-I/GFRP interaction surface; other site 985665007004 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 985665007005 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 985665007006 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 985665007007 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 985665007008 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 985665007009 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 985665007010 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 985665007011 nucleophilic elbow; other site 985665007012 catalytic triad; other site 985665007013 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 985665007014 salt bridge; other site 985665007015 non-specific DNA binding site [nucleotide binding]; other site 985665007016 sequence-specific DNA binding site [nucleotide binding]; other site 985665007017 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 985665007018 Transcriptional regulator [Transcription]; Region: IclR; COG1414 985665007019 Bacterial transcriptional regulator; Region: IclR; pfam01614 985665007020 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 985665007021 ThiC-associated domain; Region: ThiC-associated; pfam13667 985665007022 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 985665007023 Uncharacterized conserved protein [Function unknown]; Region: COG1284 985665007024 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 985665007025 peptide modification radical SAM enzyme, YydG family; Region: rSAM_yydG; TIGR04078 985665007026 SdpI/YhfL protein family; Region: SdpI; pfam13630 985665007027 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 985665007028 dimerization interface [polypeptide binding]; other site 985665007029 putative DNA binding site [nucleotide binding]; other site 985665007030 putative Zn2+ binding site [ion binding]; other site 985665007031 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665007032 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 985665007033 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665007034 Walker A/P-loop; other site 985665007035 ATP binding site [chemical binding]; other site 985665007036 Q-loop/lid; other site 985665007037 ABC transporter signature motif; other site 985665007038 Walker B; other site 985665007039 D-loop; other site 985665007040 H-loop/switch region; other site 985665007041 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 985665007042 aconitate hydratase; Validated; Region: PRK09277 985665007043 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 985665007044 substrate binding site [chemical binding]; other site 985665007045 ligand binding site [chemical binding]; other site 985665007046 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 985665007047 substrate binding site [chemical binding]; other site 985665007048 Putative amidase domain; Region: Amidase_6; pfam12671 985665007049 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 985665007050 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 985665007051 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 985665007052 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 985665007053 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 985665007054 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 985665007055 active site 985665007056 dimerization interface [polypeptide binding]; other site 985665007057 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665007058 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 985665007059 dimerization interface [polypeptide binding]; other site 985665007060 Histidine kinase; Region: His_kinase; pfam06580 985665007061 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665007062 ATP binding site [chemical binding]; other site 985665007063 Mg2+ binding site [ion binding]; other site 985665007064 G-X-G motif; other site 985665007065 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 985665007066 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665007067 active site 985665007068 phosphorylation site [posttranslational modification] 985665007069 intermolecular recognition site; other site 985665007070 dimerization interface [polypeptide binding]; other site 985665007071 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665007072 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665007073 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665007074 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 985665007075 dimer interface [polypeptide binding]; other site 985665007076 conserved gate region; other site 985665007077 putative PBP binding loops; other site 985665007078 ABC-ATPase subunit interface; other site 985665007079 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665007080 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 985665007081 dimer interface [polypeptide binding]; other site 985665007082 conserved gate region; other site 985665007083 putative PBP binding loops; other site 985665007084 ABC-ATPase subunit interface; other site 985665007085 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 985665007086 active site 985665007087 catalytic triad [active] 985665007088 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 985665007089 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 985665007090 active site 985665007091 zinc binding site [ion binding]; other site 985665007092 Anabaena sensory rhodopsin transducer; Region: ASRT; pfam07100 985665007093 EamA-like transporter family; Region: EamA; pfam00892 985665007094 EamA-like transporter family; Region: EamA; pfam00892 985665007095 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 985665007096 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 985665007097 inhibitor-cofactor binding pocket; inhibition site 985665007098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665007099 catalytic residue [active] 985665007100 Transcriptional regulator [Transcription]; Region: LytR; COG1316 985665007101 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 985665007102 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 985665007103 Walker A/P-loop; other site 985665007104 ATP binding site [chemical binding]; other site 985665007105 Q-loop/lid; other site 985665007106 ABC transporter signature motif; other site 985665007107 Walker B; other site 985665007108 D-loop; other site 985665007109 H-loop/switch region; other site 985665007110 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 985665007111 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 985665007112 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 985665007113 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 985665007114 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 985665007115 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 985665007116 catalytic triad [active] 985665007117 Spore germination protein; Region: Spore_permease; cl17796 985665007118 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 985665007119 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 985665007120 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 985665007121 H+ Antiporter protein; Region: 2A0121; TIGR00900 985665007122 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665007123 putative substrate translocation pore; other site 985665007124 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 985665007125 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 985665007126 GMP synthase; Reviewed; Region: guaA; PRK00074 985665007127 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 985665007128 AMP/PPi binding site [chemical binding]; other site 985665007129 candidate oxyanion hole; other site 985665007130 catalytic triad [active] 985665007131 potential glutamine specificity residues [chemical binding]; other site 985665007132 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 985665007133 ATP Binding subdomain [chemical binding]; other site 985665007134 Ligand Binding sites [chemical binding]; other site 985665007135 Dimerization subdomain; other site 985665007136 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665007137 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665007138 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 985665007139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665007140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665007141 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 985665007142 dimerization interface [polypeptide binding]; other site 985665007143 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 985665007144 active site 985665007145 catalytic triad [active] 985665007146 oxyanion hole [active] 985665007147 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985665007148 MarR family; Region: MarR_2; cl17246 985665007149 MarR family; Region: MarR_2; cl17246 985665007150 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 985665007151 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 985665007152 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 985665007153 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 985665007154 putative NAD(P) binding site [chemical binding]; other site 985665007155 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 985665007156 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 985665007157 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 985665007158 dimer interface [polypeptide binding]; other site 985665007159 active site 985665007160 CoA binding pocket [chemical binding]; other site 985665007161 DNA topoisomerase III; Provisional; Region: PRK07726 985665007162 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 985665007163 active site 985665007164 putative interdomain interaction site [polypeptide binding]; other site 985665007165 putative metal-binding site [ion binding]; other site 985665007166 putative nucleotide binding site [chemical binding]; other site 985665007167 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 985665007168 domain I; other site 985665007169 DNA binding groove [nucleotide binding] 985665007170 phosphate binding site [ion binding]; other site 985665007171 domain II; other site 985665007172 domain III; other site 985665007173 nucleotide binding site [chemical binding]; other site 985665007174 catalytic site [active] 985665007175 domain IV; other site 985665007176 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 985665007177 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 985665007178 active site 985665007179 homotetramer interface [polypeptide binding]; other site 985665007180 homodimer interface [polypeptide binding]; other site 985665007181 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 985665007182 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 985665007183 Ligand Binding Site [chemical binding]; other site 985665007184 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 985665007185 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 985665007186 ATP-grasp domain; Region: ATP-grasp; pfam02222 985665007187 adenylosuccinate lyase; Provisional; Region: PRK07492 985665007188 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 985665007189 tetramer interface [polypeptide binding]; other site 985665007190 active site 985665007191 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 985665007192 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 985665007193 ATP binding site [chemical binding]; other site 985665007194 active site 985665007195 substrate binding site [chemical binding]; other site 985665007196 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 985665007197 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 985665007198 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 985665007199 putative active site [active] 985665007200 catalytic triad [active] 985665007201 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 985665007202 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 985665007203 dimerization interface [polypeptide binding]; other site 985665007204 ATP binding site [chemical binding]; other site 985665007205 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 985665007206 dimerization interface [polypeptide binding]; other site 985665007207 ATP binding site [chemical binding]; other site 985665007208 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 985665007209 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 985665007210 active site 985665007211 tetramer interface [polypeptide binding]; other site 985665007212 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985665007213 active site 985665007214 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 985665007215 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 985665007216 dimerization interface [polypeptide binding]; other site 985665007217 putative ATP binding site [chemical binding]; other site 985665007218 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 985665007219 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 985665007220 active site 985665007221 substrate binding site [chemical binding]; other site 985665007222 cosubstrate binding site; other site 985665007223 catalytic site [active] 985665007224 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 985665007225 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 985665007226 purine monophosphate binding site [chemical binding]; other site 985665007227 dimer interface [polypeptide binding]; other site 985665007228 putative catalytic residues [active] 985665007229 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 985665007230 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 985665007231 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 985665007232 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 985665007233 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 985665007234 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665007235 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665007236 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 985665007237 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 985665007238 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 985665007239 substrate binding pocket [chemical binding]; other site 985665007240 membrane-bound complex binding site; other site 985665007241 hinge residues; other site 985665007242 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 985665007243 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 985665007244 dimer interface [polypeptide binding]; other site 985665007245 conserved gate region; other site 985665007246 putative PBP binding loops; other site 985665007247 ABC-ATPase subunit interface; other site 985665007248 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985665007249 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 985665007250 Walker A/P-loop; other site 985665007251 ATP binding site [chemical binding]; other site 985665007252 Q-loop/lid; other site 985665007253 ABC transporter signature motif; other site 985665007254 Walker B; other site 985665007255 D-loop; other site 985665007256 H-loop/switch region; other site 985665007257 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 985665007258 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 985665007259 Uncharacterized conserved protein [Function unknown]; Region: COG1359 985665007260 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 985665007261 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665007262 active site 985665007263 catalytic tetrad [active] 985665007264 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 985665007265 SdpI/YhfL protein family; Region: SdpI; pfam13630 985665007266 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 985665007267 dimerization interface [polypeptide binding]; other site 985665007268 putative DNA binding site [nucleotide binding]; other site 985665007269 putative Zn2+ binding site [ion binding]; other site 985665007270 putative hydrolase; Provisional; Region: PRK11460 985665007271 Predicted esterase [General function prediction only]; Region: COG0400 985665007272 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 985665007273 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665007274 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665007275 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665007276 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 985665007277 dimer interface [polypeptide binding]; other site 985665007278 conserved gate region; other site 985665007279 putative PBP binding loops; other site 985665007280 ABC-ATPase subunit interface; other site 985665007281 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665007282 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 985665007283 dimer interface [polypeptide binding]; other site 985665007284 conserved gate region; other site 985665007285 putative PBP binding loops; other site 985665007286 ABC-ATPase subunit interface; other site 985665007287 threonine dehydratase; Validated; Region: PRK08639 985665007288 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 985665007289 tetramer interface [polypeptide binding]; other site 985665007290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665007291 catalytic residue [active] 985665007292 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 985665007293 putative Ile/Val binding site [chemical binding]; other site 985665007294 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 985665007295 substrate binding site [chemical binding]; other site 985665007296 active site 985665007297 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985665007298 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 985665007299 ABC-ATPase subunit interface; other site 985665007300 dimer interface [polypeptide binding]; other site 985665007301 putative PBP binding regions; other site 985665007302 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 985665007303 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 985665007304 ABC-ATPase subunit interface; other site 985665007305 dimer interface [polypeptide binding]; other site 985665007306 putative PBP binding regions; other site 985665007307 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 985665007308 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 985665007309 intersubunit interface [polypeptide binding]; other site 985665007310 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 985665007311 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 985665007312 nucleophilic elbow; other site 985665007313 catalytic triad; other site 985665007314 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 985665007315 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 985665007316 putative active site [active] 985665007317 metal binding site [ion binding]; metal-binding site 985665007318 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 985665007319 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 985665007320 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 985665007321 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 985665007322 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 985665007323 substrate binding pocket [chemical binding]; other site 985665007324 membrane-bound complex binding site; other site 985665007325 hinge residues; other site 985665007326 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 985665007327 dimer interface [polypeptide binding]; other site 985665007328 conserved gate region; other site 985665007329 putative PBP binding loops; other site 985665007330 ABC-ATPase subunit interface; other site 985665007331 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985665007332 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 985665007333 Walker A/P-loop; other site 985665007334 ATP binding site [chemical binding]; other site 985665007335 Q-loop/lid; other site 985665007336 ABC transporter signature motif; other site 985665007337 Walker B; other site 985665007338 D-loop; other site 985665007339 H-loop/switch region; other site 985665007340 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665007341 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 985665007342 Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u2; cd12831 985665007343 oligomer interface [polypeptide binding]; other site 985665007344 metal binding site [ion binding]; metal-binding site 985665007345 metal binding site [ion binding]; metal-binding site 985665007346 putative Cl binding site [ion binding]; other site 985665007347 aspartate ring; other site 985665007348 basic sphincter; other site 985665007349 hydrophobic gate; other site 985665007350 periplasmic entrance; other site 985665007351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 985665007352 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 985665007353 putative active site [active] 985665007354 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 985665007355 putative active site [active] 985665007356 putative lipid kinase; Reviewed; Region: PRK13337 985665007357 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 985665007358 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 985665007359 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 985665007360 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 985665007361 S-adenosylmethionine binding site [chemical binding]; other site 985665007362 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 985665007363 HTH-like domain; Region: HTH_21; pfam13276 985665007364 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 985665007365 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 985665007366 cofactor binding site; other site 985665007367 DNA binding site [nucleotide binding] 985665007368 substrate interaction site [chemical binding]; other site 985665007369 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 985665007370 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 985665007371 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 985665007372 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665007373 ATP binding site [chemical binding]; other site 985665007374 Mg2+ binding site [ion binding]; other site 985665007375 G-X-G motif; other site 985665007376 Z1 domain; Region: Z1; pfam10593 985665007377 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 985665007378 AIPR protein; Region: AIPR; pfam10592 985665007379 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 985665007380 ParB-like nuclease domain; Region: ParBc; pfam02195 985665007381 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 985665007382 DNA methylase; Region: N6_N4_Mtase; pfam01555 985665007383 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 985665007384 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 985665007385 active site 985665007386 DNA binding site [nucleotide binding] 985665007387 Int/Topo IB signature motif; other site 985665007388 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 985665007389 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 985665007390 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 985665007391 dimer interface [polypeptide binding]; other site 985665007392 FMN binding site [chemical binding]; other site 985665007393 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665007394 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 985665007395 dimerization interface [polypeptide binding]; other site 985665007396 putative DNA binding site [nucleotide binding]; other site 985665007397 putative Zn2+ binding site [ion binding]; other site 985665007398 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 985665007399 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 985665007400 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 985665007401 P22 coat protein - gene protein 5; Region: P22_CoatProtein; pfam11651 985665007402 Phage gp6-like head-tail connector protein; Region: Phage_connect_1; pfam05135 985665007403 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 985665007404 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 985665007405 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 985665007406 catalytic residues [active] 985665007407 catalytic nucleophile [active] 985665007408 Recombinase; Region: Recombinase; pfam07508 985665007409 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 985665007410 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 985665007411 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 985665007412 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 985665007413 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 985665007414 potential frameshift: common BLAST hit: gi|187933312|ref|YP_001886270.1| type I restriction-modification system, M subunit 985665007415 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 985665007416 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 985665007417 FMN binding site [chemical binding]; other site 985665007418 active site 985665007419 catalytic residues [active] 985665007420 substrate binding site [chemical binding]; other site 985665007421 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 985665007422 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 985665007423 Horizontally Transferred TransMembrane Domain; Region: HTTM; smart00752 985665007424 Protein of unknown function, DUF393; Region: DUF393; pfam04134 985665007425 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 985665007426 Peptidase family M23; Region: Peptidase_M23; pfam01551 985665007427 HEAT repeats; Region: HEAT_2; pfam13646 985665007428 putative transport protein YifK; Provisional; Region: PRK10746 985665007429 S-layer homology domain; Region: SLH; pfam00395 985665007430 S-layer homology domain; Region: SLH; pfam00395 985665007431 Domain of Unknown Function with PDB structure (DUF3863); Region: DUF3863; pfam12979 985665007432 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 985665007433 dimer interface [polypeptide binding]; other site 985665007434 FMN binding site [chemical binding]; other site 985665007435 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665007436 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985665007437 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 985665007438 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 985665007439 intersubunit interface [polypeptide binding]; other site 985665007440 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665007441 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665007442 DNA binding site [nucleotide binding] 985665007443 domain linker motif; other site 985665007444 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 985665007445 dimerization interface [polypeptide binding]; other site 985665007446 ligand binding site [chemical binding]; other site 985665007447 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 985665007448 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 985665007449 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665007450 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665007451 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 985665007452 dimer interface [polypeptide binding]; other site 985665007453 conserved gate region; other site 985665007454 putative PBP binding loops; other site 985665007455 ABC-ATPase subunit interface; other site 985665007456 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665007457 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 985665007458 dimer interface [polypeptide binding]; other site 985665007459 conserved gate region; other site 985665007460 putative PBP binding loops; other site 985665007461 ABC-ATPase subunit interface; other site 985665007462 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 985665007463 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 985665007464 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 985665007465 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665007466 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 985665007467 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 985665007468 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 985665007469 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 985665007470 homodimer interface [polypeptide binding]; other site 985665007471 NADP binding site [chemical binding]; other site 985665007472 substrate binding site [chemical binding]; other site 985665007473 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 985665007474 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 985665007475 putative di-iron ligands [ion binding]; other site 985665007476 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985665007477 Histidine kinase; Region: HisKA_3; pfam07730 985665007478 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665007479 ATP binding site [chemical binding]; other site 985665007480 Mg2+ binding site [ion binding]; other site 985665007481 G-X-G motif; other site 985665007482 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985665007483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665007484 active site 985665007485 phosphorylation site [posttranslational modification] 985665007486 intermolecular recognition site; other site 985665007487 dimerization interface [polypeptide binding]; other site 985665007488 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 985665007489 DNA binding residues [nucleotide binding] 985665007490 dimerization interface [polypeptide binding]; other site 985665007491 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 985665007492 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 985665007493 Substrate-binding site [chemical binding]; other site 985665007494 Substrate specificity [chemical binding]; other site 985665007495 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 985665007496 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 985665007497 Substrate-binding site [chemical binding]; other site 985665007498 Substrate specificity [chemical binding]; other site 985665007499 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 985665007500 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 985665007501 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665007502 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665007503 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 985665007504 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 985665007505 Walker A/P-loop; other site 985665007506 ATP binding site [chemical binding]; other site 985665007507 Q-loop/lid; other site 985665007508 ABC transporter signature motif; other site 985665007509 Walker B; other site 985665007510 D-loop; other site 985665007511 H-loop/switch region; other site 985665007512 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 985665007513 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 985665007514 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 985665007515 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 985665007516 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985665007517 metal binding site [ion binding]; metal-binding site 985665007518 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 985665007519 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 985665007520 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 985665007521 shikimate binding site; other site 985665007522 NAD(P) binding site [chemical binding]; other site 985665007523 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665007524 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665007525 putative substrate translocation pore; other site 985665007526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665007527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665007528 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 985665007529 putative dimerization interface [polypeptide binding]; other site 985665007530 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665007531 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665007532 putative substrate translocation pore; other site 985665007533 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 985665007534 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 985665007535 active site 985665007536 catalytic residue [active] 985665007537 dimer interface [polypeptide binding]; other site 985665007538 shikimate kinase; Reviewed; Region: aroK; PRK00131 985665007539 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 985665007540 ADP binding site [chemical binding]; other site 985665007541 magnesium binding site [ion binding]; other site 985665007542 putative shikimate binding site; other site 985665007543 Pectate lyase; Region: Pectate_lyase; pfam03211 985665007544 Phosphotransferase enzyme family; Region: APH; pfam01636 985665007545 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 985665007546 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 985665007547 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665007548 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 985665007549 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665007550 putative substrate translocation pore; other site 985665007551 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 985665007552 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 985665007553 dimer interface [polypeptide binding]; other site 985665007554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665007555 catalytic residue [active] 985665007556 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 985665007557 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665007558 active site 985665007559 catalytic tetrad [active] 985665007560 WYL domain; Region: WYL; pfam13280 985665007561 Predicted transcriptional regulator [Transcription]; Region: COG2378 985665007562 WYL domain; Region: WYL; pfam13280 985665007563 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 985665007564 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 985665007565 active site 985665007566 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 985665007567 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 985665007568 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 985665007569 Walker A/P-loop; other site 985665007570 ATP binding site [chemical binding]; other site 985665007571 Q-loop/lid; other site 985665007572 ABC transporter signature motif; other site 985665007573 Walker B; other site 985665007574 D-loop; other site 985665007575 H-loop/switch region; other site 985665007576 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 985665007577 Walker A/P-loop; other site 985665007578 ATP binding site [chemical binding]; other site 985665007579 Q-loop/lid; other site 985665007580 ABC transporter signature motif; other site 985665007581 Walker B; other site 985665007582 D-loop; other site 985665007583 H-loop/switch region; other site 985665007584 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 985665007585 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985665007586 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 985665007587 Walker A/P-loop; other site 985665007588 ATP binding site [chemical binding]; other site 985665007589 Q-loop/lid; other site 985665007590 ABC transporter signature motif; other site 985665007591 Walker B; other site 985665007592 D-loop; other site 985665007593 H-loop/switch region; other site 985665007594 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 985665007595 dimer interface [polypeptide binding]; other site 985665007596 conserved gate region; other site 985665007597 ABC-ATPase subunit interface; other site 985665007598 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 985665007599 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 985665007600 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 985665007601 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665007602 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665007603 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 985665007604 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 985665007605 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 985665007606 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 985665007607 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 985665007608 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 985665007609 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 985665007610 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 985665007611 hypothetical protein; Provisional; Region: PRK13660 985665007612 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 985665007613 metal binding site [ion binding]; metal-binding site 985665007614 active site 985665007615 YvrJ protein family; Region: YvrJ; pfam12841 985665007616 Acidic fibroblast growth factor binding (FIBP); Region: FIBP; pfam05427 985665007617 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 985665007618 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 985665007619 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 985665007620 active site 985665007621 motif I; other site 985665007622 motif II; other site 985665007623 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 985665007624 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 985665007625 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665007626 Walker A/P-loop; other site 985665007627 ATP binding site [chemical binding]; other site 985665007628 Q-loop/lid; other site 985665007629 tellurite resistance protein terB; Region: terB; cd07176 985665007630 putative metal binding site [ion binding]; other site 985665007631 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 985665007632 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 985665007633 putative metal binding site [ion binding]; other site 985665007634 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 985665007635 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 985665007636 putative metal binding site [ion binding]; other site 985665007637 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 985665007638 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 985665007639 putative metal binding site [ion binding]; other site 985665007640 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 985665007641 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 985665007642 putative metal binding site [ion binding]; other site 985665007643 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 985665007644 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 985665007645 putative metal binding site [ion binding]; other site 985665007646 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 985665007647 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 985665007648 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985665007649 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 985665007650 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 985665007651 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 985665007652 ATP-grasp domain; Region: ATP-grasp_4; cl17255 985665007653 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 985665007654 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 985665007655 zinc binding site [ion binding]; other site 985665007656 Fic family protein [Function unknown]; Region: COG3177 985665007657 Fic/DOC family; Region: Fic; pfam02661 985665007658 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 985665007659 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 985665007660 peptide binding site [polypeptide binding]; other site 985665007661 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 985665007662 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 985665007663 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 985665007664 dimer interface [polypeptide binding]; other site 985665007665 conserved gate region; other site 985665007666 putative PBP binding loops; other site 985665007667 ABC-ATPase subunit interface; other site 985665007668 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665007669 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 985665007670 dimer interface [polypeptide binding]; other site 985665007671 conserved gate region; other site 985665007672 putative PBP binding loops; other site 985665007673 ABC-ATPase subunit interface; other site 985665007674 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 985665007675 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 985665007676 substrate binding pocket [chemical binding]; other site 985665007677 membrane-bound complex binding site; other site 985665007678 hinge residues; other site 985665007679 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 985665007680 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 985665007681 dimer interface [polypeptide binding]; other site 985665007682 conserved gate region; other site 985665007683 putative PBP binding loops; other site 985665007684 ABC-ATPase subunit interface; other site 985665007685 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985665007686 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 985665007687 Walker A/P-loop; other site 985665007688 ATP binding site [chemical binding]; other site 985665007689 Q-loop/lid; other site 985665007690 ABC transporter signature motif; other site 985665007691 Walker B; other site 985665007692 D-loop; other site 985665007693 H-loop/switch region; other site 985665007694 Protein of unknown function (DUF3782); Region: DUF3782; pfam12644 985665007695 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985665007696 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 985665007697 non-specific DNA binding site [nucleotide binding]; other site 985665007698 salt bridge; other site 985665007699 sequence-specific DNA binding site [nucleotide binding]; other site 985665007700 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985665007701 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 985665007702 non-specific DNA binding site [nucleotide binding]; other site 985665007703 salt bridge; other site 985665007704 sequence-specific DNA binding site [nucleotide binding]; other site 985665007705 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 985665007706 putative active site [active] 985665007707 putative catalytic site [active] 985665007708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 985665007709 Cupin domain; Region: Cupin_2; pfam07883 985665007710 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665007711 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665007712 EamA-like transporter family; Region: EamA; pfam00892 985665007713 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 985665007714 dimer interface [polypeptide binding]; other site 985665007715 putative tRNA-binding site [nucleotide binding]; other site 985665007716 EamA-like transporter family; Region: EamA; pfam00892 985665007717 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665007718 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665007719 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 985665007720 potential frameshift: common BLAST hit: gi|337747606|ref|YP_004641768.1| putative transcriptional regulator 985665007721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665007722 Walker A/P-loop; other site 985665007723 ATP binding site [chemical binding]; other site 985665007724 Q-loop/lid; other site 985665007725 ABC transporter signature motif; other site 985665007726 H-loop/switch region; other site 985665007727 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 985665007728 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 985665007729 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665007730 putative substrate translocation pore; other site 985665007731 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665007732 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665007733 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665007734 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 985665007735 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 985665007736 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 985665007737 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 985665007738 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 985665007739 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 985665007740 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 985665007741 Predicted permeases [General function prediction only]; Region: COG0679 985665007742 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 985665007743 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 985665007744 tetrameric interface [polypeptide binding]; other site 985665007745 NAD binding site [chemical binding]; other site 985665007746 catalytic residues [active] 985665007747 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 985665007748 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 985665007749 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 985665007750 substrate binding site [chemical binding]; other site 985665007751 ATP binding site [chemical binding]; other site 985665007752 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 985665007753 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 985665007754 PYR/PP interface [polypeptide binding]; other site 985665007755 dimer interface [polypeptide binding]; other site 985665007756 TPP binding site [chemical binding]; other site 985665007757 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 985665007758 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 985665007759 TPP-binding site; other site 985665007760 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 985665007761 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 985665007762 Metal-binding active site; metal-binding site 985665007763 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 985665007764 intersubunit interface [polypeptide binding]; other site 985665007765 active site 985665007766 zinc binding site [ion binding]; other site 985665007767 Na+ binding site [ion binding]; other site 985665007768 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 985665007769 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 985665007770 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 985665007771 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 985665007772 calcium mediated ligand binding site; other site 985665007773 intermolecular salt bridges; other site 985665007774 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 985665007775 alpha-galactosidase; Provisional; Region: PRK15076 985665007776 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 985665007777 NAD binding site [chemical binding]; other site 985665007778 sugar binding site [chemical binding]; other site 985665007779 divalent metal binding site [ion binding]; other site 985665007780 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 985665007781 dimer interface [polypeptide binding]; other site 985665007782 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665007783 Histidine kinase; Region: His_kinase; pfam06580 985665007784 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665007785 ATP binding site [chemical binding]; other site 985665007786 Mg2+ binding site [ion binding]; other site 985665007787 G-X-G motif; other site 985665007788 Response regulator receiver domain; Region: Response_reg; pfam00072 985665007789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665007790 active site 985665007791 phosphorylation site [posttranslational modification] 985665007792 intermolecular recognition site; other site 985665007793 dimerization interface [polypeptide binding]; other site 985665007794 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665007795 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665007796 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665007797 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665007798 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665007799 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 985665007800 dimer interface [polypeptide binding]; other site 985665007801 conserved gate region; other site 985665007802 putative PBP binding loops; other site 985665007803 ABC-ATPase subunit interface; other site 985665007804 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665007805 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 985665007806 dimer interface [polypeptide binding]; other site 985665007807 conserved gate region; other site 985665007808 putative PBP binding loops; other site 985665007809 ABC-ATPase subunit interface; other site 985665007810 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 985665007811 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 985665007812 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 985665007813 active site 985665007814 Putative Ig domain; Region: He_PIG; pfam05345 985665007815 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 985665007816 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 985665007817 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 985665007818 Proline racemase; Region: Pro_racemase; pfam05544 985665007819 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 985665007820 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 985665007821 inhibitor site; inhibition site 985665007822 active site 985665007823 dimer interface [polypeptide binding]; other site 985665007824 catalytic residue [active] 985665007825 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 985665007826 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 985665007827 NAD(P) binding site [chemical binding]; other site 985665007828 catalytic residues [active] 985665007829 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 985665007830 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 985665007831 flavoprotein, HI0933 family; Region: TIGR00275 985665007832 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 985665007833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 985665007834 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 985665007835 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665007836 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665007837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665007838 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 985665007839 dimerization interface [polypeptide binding]; other site 985665007840 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 985665007841 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985665007842 metal binding site [ion binding]; metal-binding site 985665007843 Predicted membrane protein [Function unknown]; Region: COG1288 985665007844 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 985665007845 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 985665007846 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 985665007847 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 985665007848 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 985665007849 allantoate amidohydrolase; Region: AllC; TIGR03176 985665007850 active site 985665007851 metal binding site [ion binding]; metal-binding site 985665007852 dimer interface [polypeptide binding]; other site 985665007853 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665007854 D-galactonate transporter; Region: 2A0114; TIGR00893 985665007855 putative substrate translocation pore; other site 985665007856 putative allantoin catabolism protein; Region: ura-cupin; TIGR03214 985665007857 Cupin domain; Region: Cupin_2; cl17218 985665007858 Cupin domain; Region: Cupin_2; cl17218 985665007859 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 985665007860 membrane protein FdrA; Validated; Region: PRK06091 985665007861 CoA binding domain; Region: CoA_binding; pfam02629 985665007862 CoA-ligase; Region: Ligase_CoA; pfam00549 985665007863 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 985665007864 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 985665007865 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 985665007866 carbamate kinase; Reviewed; Region: PRK12686 985665007867 putative substrate binding site [chemical binding]; other site 985665007868 homodimer interface [polypeptide binding]; other site 985665007869 nucleotide binding site [chemical binding]; other site 985665007870 nucleotide binding site [chemical binding]; other site 985665007871 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 985665007872 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 985665007873 metal binding site [ion binding]; metal-binding site 985665007874 active site 985665007875 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665007876 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665007877 DNA binding site [nucleotide binding] 985665007878 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 985665007879 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665007880 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665007881 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 985665007882 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 985665007883 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 985665007884 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 985665007885 active site 985665007886 substrate binding [chemical binding]; other site 985665007887 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 985665007888 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 985665007889 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 985665007890 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 985665007891 FeS/SAM binding site; other site 985665007892 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 985665007893 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 985665007894 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 985665007895 Nucleotide-binding sites [chemical binding]; other site 985665007896 Walker A motif; other site 985665007897 Switch I region of nucleotide binding site; other site 985665007898 Fe4S4 binding sites [ion binding]; other site 985665007899 Switch II region of nucleotide binding site; other site 985665007900 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 985665007901 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 985665007902 MoFe protein alpha/beta subunit interactions; other site 985665007903 Alpha subunit P cluster binding residues; other site 985665007904 FeMoco binding residues [chemical binding]; other site 985665007905 MoFe protein alpha subunit/Fe protein contacts; other site 985665007906 MoFe protein dimer/ dimer interactions; other site 985665007907 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 985665007908 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 985665007909 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 985665007910 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 985665007911 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 985665007912 Nitrogenase_nifN1: 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_1; cd01966 985665007913 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 985665007914 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. The protein...; Region: NifX; cd00853 985665007915 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 985665007916 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 985665007917 ATP binding site [chemical binding]; other site 985665007918 substrate interface [chemical binding]; other site 985665007919 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 985665007920 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 985665007921 active site 985665007922 catalytic residues [active] 985665007923 metal binding site [ion binding]; metal-binding site 985665007924 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 985665007925 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665007926 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665007927 Walker A/P-loop; other site 985665007928 ATP binding site [chemical binding]; other site 985665007929 Q-loop/lid; other site 985665007930 ABC transporter signature motif; other site 985665007931 Walker B; other site 985665007932 D-loop; other site 985665007933 H-loop/switch region; other site 985665007934 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665007935 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665007936 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 985665007937 Walker A/P-loop; other site 985665007938 ATP binding site [chemical binding]; other site 985665007939 Q-loop/lid; other site 985665007940 ABC transporter signature motif; other site 985665007941 Walker B; other site 985665007942 D-loop; other site 985665007943 H-loop/switch region; other site 985665007944 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 985665007945 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 985665007946 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 985665007947 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 985665007948 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 985665007949 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 985665007950 putative active site [active] 985665007951 heme pocket [chemical binding]; other site 985665007952 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665007953 ATP binding site [chemical binding]; other site 985665007954 Mg2+ binding site [ion binding]; other site 985665007955 G-X-G motif; other site 985665007956 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 985665007957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665007958 active site 985665007959 phosphorylation site [posttranslational modification] 985665007960 intermolecular recognition site; other site 985665007961 dimerization interface [polypeptide binding]; other site 985665007962 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 985665007963 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 985665007964 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 985665007965 Malic enzyme, N-terminal domain; Region: malic; pfam00390 985665007966 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 985665007967 putative NAD(P) binding site [chemical binding]; other site 985665007968 Cupin domain; Region: Cupin_2; pfam07883 985665007969 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665007970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665007971 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665007972 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 985665007973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665007974 putative substrate translocation pore; other site 985665007975 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 985665007976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665007977 active site 985665007978 phosphorylation site [posttranslational modification] 985665007979 intermolecular recognition site; other site 985665007980 dimerization interface [polypeptide binding]; other site 985665007981 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665007982 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665007983 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665007984 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 985665007985 dimerization interface [polypeptide binding]; other site 985665007986 Histidine kinase; Region: His_kinase; pfam06580 985665007987 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665007988 ATP binding site [chemical binding]; other site 985665007989 Mg2+ binding site [ion binding]; other site 985665007990 G-X-G motif; other site 985665007991 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 985665007992 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 985665007993 ligand binding site [chemical binding]; other site 985665007994 alpha-galactosidase; Provisional; Region: PRK15076 985665007995 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 985665007996 NAD binding site [chemical binding]; other site 985665007997 sugar binding site [chemical binding]; other site 985665007998 divalent metal binding site [ion binding]; other site 985665007999 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 985665008000 dimer interface [polypeptide binding]; other site 985665008001 Cellobiohydrolase A (1,4-beta-cellobiosidase A) [Carbohydrate transport and metabolism]; Region: CelA; COG5297 985665008002 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 985665008003 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 985665008004 Interdomain contacts; other site 985665008005 Cytokine receptor motif; other site 985665008006 Cellulose binding domain; Region: CBM_3; pfam00942 985665008007 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 985665008008 active site 985665008009 PAS domain S-box; Region: sensory_box; TIGR00229 985665008010 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 985665008011 putative active site [active] 985665008012 heme pocket [chemical binding]; other site 985665008013 PAS domain S-box; Region: sensory_box; TIGR00229 985665008014 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 985665008015 putative active site [active] 985665008016 heme pocket [chemical binding]; other site 985665008017 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 985665008018 PAS fold; Region: PAS_3; pfam08447 985665008019 putative active site [active] 985665008020 heme pocket [chemical binding]; other site 985665008021 PAS domain S-box; Region: sensory_box; TIGR00229 985665008022 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 985665008023 putative active site [active] 985665008024 heme pocket [chemical binding]; other site 985665008025 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 985665008026 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 985665008027 putative active site [active] 985665008028 heme pocket [chemical binding]; other site 985665008029 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 985665008030 dimer interface [polypeptide binding]; other site 985665008031 phosphorylation site [posttranslational modification] 985665008032 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665008033 ATP binding site [chemical binding]; other site 985665008034 Mg2+ binding site [ion binding]; other site 985665008035 G-X-G motif; other site 985665008036 Predicted transcriptional regulators [Transcription]; Region: COG1725 985665008037 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665008038 DNA-binding site [nucleotide binding]; DNA binding site 985665008039 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985665008040 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 985665008041 Walker A/P-loop; other site 985665008042 ATP binding site [chemical binding]; other site 985665008043 Q-loop/lid; other site 985665008044 ABC transporter signature motif; other site 985665008045 Walker B; other site 985665008046 D-loop; other site 985665008047 H-loop/switch region; other site 985665008048 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 985665008049 Methyltransferase domain; Region: Methyltransf_11; pfam08241 985665008050 S-adenosylmethionine binding site [chemical binding]; other site 985665008051 PBP superfamily domain; Region: PBP_like_2; cl17296 985665008052 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 985665008053 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; cl00470 985665008054 catalytic tetrad [active] 985665008055 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 985665008056 active site 985665008057 SUMO-1 interface [polypeptide binding]; other site 985665008058 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 985665008059 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 985665008060 hexamer interface [polypeptide binding]; other site 985665008061 ligand binding site [chemical binding]; other site 985665008062 putative active site [active] 985665008063 NAD(P) binding site [chemical binding]; other site 985665008064 DRTGG domain; Region: DRTGG; pfam07085 985665008065 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 985665008066 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 985665008067 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 985665008068 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665008069 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 985665008070 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 985665008071 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 985665008072 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 985665008073 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 985665008074 active site 985665008075 catalytic triad [active] 985665008076 oxyanion hole [active] 985665008077 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 985665008078 Domain of unknown function DUF21; Region: DUF21; pfam01595 985665008079 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 985665008080 Transporter associated domain; Region: CorC_HlyC; smart01091 985665008081 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 985665008082 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 985665008083 dimerization interface [polypeptide binding]; other site 985665008084 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665008085 dimer interface [polypeptide binding]; other site 985665008086 putative CheW interface [polypeptide binding]; other site 985665008087 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 985665008088 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 985665008089 active site 985665008090 Protein of unknown function (DUF3886); Region: DUF3886; pfam13025 985665008091 drug efflux system protein MdtG; Provisional; Region: PRK09874 985665008092 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665008093 putative substrate translocation pore; other site 985665008094 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 985665008095 salt bridge; other site 985665008096 non-specific DNA binding site [nucleotide binding]; other site 985665008097 sequence-specific DNA binding site [nucleotide binding]; other site 985665008098 potential frameshift: common BLAST hit: gi|310641055|ref|YP_003945813.1| helix-turn-helix domain-containing protein 985665008099 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665008100 EamA-like transporter family; Region: EamA; pfam00892 985665008101 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 985665008102 EamA-like transporter family; Region: EamA; pfam00892 985665008103 Predicted transcriptional regulators [Transcription]; Region: COG1378 985665008104 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 985665008105 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 985665008106 C-terminal domain interface [polypeptide binding]; other site 985665008107 sugar binding site [chemical binding]; other site 985665008108 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 985665008109 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 985665008110 Chorismate mutase type II; Region: CM_2; cl00693 985665008111 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 985665008112 Predicted amidohydrolase [General function prediction only]; Region: COG0388 985665008113 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 985665008114 putative active site [active] 985665008115 catalytic triad [active] 985665008116 putative dimer interface [polypeptide binding]; other site 985665008117 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665008118 Coenzyme A binding pocket [chemical binding]; other site 985665008119 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665008120 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 985665008121 dimer interface [polypeptide binding]; other site 985665008122 phosphorylation site [posttranslational modification] 985665008123 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665008124 ATP binding site [chemical binding]; other site 985665008125 Mg2+ binding site [ion binding]; other site 985665008126 G-X-G motif; other site 985665008127 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 985665008128 YvrJ protein family; Region: YvrJ; pfam12841 985665008129 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665008130 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665008131 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 985665008132 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 985665008133 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 985665008134 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 985665008135 non-specific DNA binding site [nucleotide binding]; other site 985665008136 salt bridge; other site 985665008137 sequence-specific DNA binding site [nucleotide binding]; other site 985665008138 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665008139 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 985665008140 Acyltransferase family; Region: Acyl_transf_3; pfam01757 985665008141 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 985665008142 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 985665008143 putative ligand binding site [chemical binding]; other site 985665008144 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665008145 Cache domain; Region: Cache_1; pfam02743 985665008146 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 985665008147 dimerization interface [polypeptide binding]; other site 985665008148 Histidine kinase; Region: His_kinase; pfam06580 985665008149 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665008150 ATP binding site [chemical binding]; other site 985665008151 Mg2+ binding site [ion binding]; other site 985665008152 G-X-G motif; other site 985665008153 Response regulator receiver domain; Region: Response_reg; pfam00072 985665008154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665008155 active site 985665008156 phosphorylation site [posttranslational modification] 985665008157 intermolecular recognition site; other site 985665008158 dimerization interface [polypeptide binding]; other site 985665008159 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665008160 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665008161 hydroxylamine reductase; Provisional; Region: PRK12310 985665008162 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 985665008163 ACS interaction site; other site 985665008164 CODH interaction site; other site 985665008165 metal cluster binding site [ion binding]; other site 985665008166 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 985665008167 non-specific DNA binding site [nucleotide binding]; other site 985665008168 salt bridge; other site 985665008169 sequence-specific DNA binding site [nucleotide binding]; other site 985665008170 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 985665008171 metal binding site [ion binding]; metal-binding site 985665008172 RES domain; Region: RES; smart00953 985665008173 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 985665008174 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 985665008175 putative ligand binding site [chemical binding]; other site 985665008176 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 985665008177 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 985665008178 Walker A/P-loop; other site 985665008179 ATP binding site [chemical binding]; other site 985665008180 Q-loop/lid; other site 985665008181 ABC transporter signature motif; other site 985665008182 Walker B; other site 985665008183 D-loop; other site 985665008184 H-loop/switch region; other site 985665008185 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 985665008186 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 985665008187 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 985665008188 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 985665008189 TM-ABC transporter signature motif; other site 985665008190 short chain dehydrogenase; Provisional; Region: PRK06701 985665008191 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 985665008192 NAD binding site [chemical binding]; other site 985665008193 metal binding site [ion binding]; metal-binding site 985665008194 active site 985665008195 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 985665008196 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 985665008197 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 985665008198 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 985665008199 putative DNA binding site [nucleotide binding]; other site 985665008200 putative Zn2+ binding site [ion binding]; other site 985665008201 AsnC family; Region: AsnC_trans_reg; pfam01037 985665008202 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 985665008203 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 985665008204 EcsC protein family; Region: EcsC; pfam12787 985665008205 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665008206 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665008207 putative substrate translocation pore; other site 985665008208 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665008209 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 985665008210 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 985665008211 active site 985665008212 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 985665008213 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 985665008214 active site turn [active] 985665008215 phosphorylation site [posttranslational modification] 985665008216 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665008217 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 985665008218 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 985665008219 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 985665008220 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 985665008221 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 985665008222 substrate binding [chemical binding]; other site 985665008223 active site 985665008224 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 985665008225 Cupin domain; Region: Cupin_2; pfam07883 985665008226 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665008227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665008228 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665008229 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 985665008230 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 985665008231 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 985665008232 FeS/SAM binding site; other site 985665008233 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 985665008234 active site 985665008235 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 985665008236 Ligand Binding Site [chemical binding]; other site 985665008237 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 985665008238 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 985665008239 Predicted transcriptional regulator [Transcription]; Region: COG2378 985665008240 HTH domain; Region: HTH_11; pfam08279 985665008241 WYL domain; Region: WYL; pfam13280 985665008242 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 985665008243 active site 985665008244 catalytic site [active] 985665008245 substrate binding site [chemical binding]; other site 985665008246 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 985665008247 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 985665008248 putative active site [active] 985665008249 putative metal binding site [ion binding]; other site 985665008250 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 985665008251 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985665008252 Domain of unknown function (DUF955); Region: DUF955; pfam06114 985665008253 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985665008254 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 985665008255 non-specific DNA binding site [nucleotide binding]; other site 985665008256 salt bridge; other site 985665008257 sequence-specific DNA binding site [nucleotide binding]; other site 985665008258 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 985665008259 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 985665008260 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 985665008261 Phage XkdN-like protein; Region: XkdN; pfam08890 985665008262 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 985665008263 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985665008264 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 985665008265 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 985665008266 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 985665008267 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 985665008268 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 985665008269 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 985665008270 Holin family; Region: Phage_holin_4; pfam05105 985665008271 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 985665008272 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 985665008273 active site 985665008274 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985665008275 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 985665008276 peptide binding site [polypeptide binding]; other site 985665008277 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665008278 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 985665008279 dimer interface [polypeptide binding]; other site 985665008280 conserved gate region; other site 985665008281 putative PBP binding loops; other site 985665008282 ABC-ATPase subunit interface; other site 985665008283 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 985665008284 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 985665008285 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 985665008286 dimer interface [polypeptide binding]; other site 985665008287 conserved gate region; other site 985665008288 putative PBP binding loops; other site 985665008289 ABC-ATPase subunit interface; other site 985665008290 dGTP triphosphohydrolase [Nucleotide transport and metabolism]; Region: Dgt; COG0232 985665008291 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665008292 Zn2+ binding site [ion binding]; other site 985665008293 Mg2+ binding site [ion binding]; other site 985665008294 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 985665008295 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 985665008296 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 985665008297 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 985665008298 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 985665008299 S-adenosylmethionine binding site [chemical binding]; other site 985665008300 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 985665008301 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 985665008302 NAD binding site [chemical binding]; other site 985665008303 ligand binding site [chemical binding]; other site 985665008304 catalytic site [active] 985665008305 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 985665008306 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 985665008307 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 985665008308 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 985665008309 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 985665008310 metal-dependent hydrolase; Provisional; Region: PRK00685 985665008311 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 985665008312 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 985665008313 active site 985665008314 dimer interface [polypeptide binding]; other site 985665008315 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 985665008316 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 985665008317 active site 985665008318 FMN binding site [chemical binding]; other site 985665008319 substrate binding site [chemical binding]; other site 985665008320 3Fe-4S cluster binding site [ion binding]; other site 985665008321 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 985665008322 domain interface; other site 985665008323 Histidine kinase; Region: HisKA_3; pfam07730 985665008324 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665008325 ATP binding site [chemical binding]; other site 985665008326 Mg2+ binding site [ion binding]; other site 985665008327 G-X-G motif; other site 985665008328 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985665008329 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665008330 active site 985665008331 phosphorylation site [posttranslational modification] 985665008332 intermolecular recognition site; other site 985665008333 dimerization interface [polypeptide binding]; other site 985665008334 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 985665008335 DNA binding residues [nucleotide binding] 985665008336 dimerization interface [polypeptide binding]; other site 985665008337 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 985665008338 Chain length determinant protein; Region: Wzz; cl15801 985665008339 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 985665008340 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 985665008341 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 985665008342 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 985665008343 active site 985665008344 tetramer interface; other site 985665008345 Bacterial sugar transferase; Region: Bac_transf; pfam02397 985665008346 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 985665008347 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 985665008348 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 985665008349 active site 985665008350 O-Antigen ligase; Region: Wzy_C; pfam04932 985665008351 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 985665008352 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 985665008353 O-Antigen ligase; Region: Wzy_C; pfam04932 985665008354 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 985665008355 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 985665008356 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 985665008357 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 985665008358 putative metal binding site; other site 985665008359 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665008360 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 985665008361 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665008362 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 985665008363 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665008364 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 985665008365 putative ADP-binding pocket [chemical binding]; other site 985665008366 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 985665008367 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 985665008368 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 985665008369 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 985665008370 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 985665008371 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 985665008372 active site 985665008373 Cupin domain; Region: Cupin_2; cl17218 985665008374 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 985665008375 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 985665008376 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 985665008377 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 985665008378 non-specific DNA binding site [nucleotide binding]; other site 985665008379 salt bridge; other site 985665008380 sequence-specific DNA binding site [nucleotide binding]; other site 985665008381 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 985665008382 Chain length determinant protein; Region: Wzz; cl15801 985665008383 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 985665008384 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 985665008385 Bacterial sugar transferase; Region: Bac_transf; pfam02397 985665008386 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 985665008387 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 985665008388 NADP binding site [chemical binding]; other site 985665008389 active site 985665008390 putative substrate binding site [chemical binding]; other site 985665008391 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 985665008392 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 985665008393 NADP-binding site; other site 985665008394 homotetramer interface [polypeptide binding]; other site 985665008395 substrate binding site [chemical binding]; other site 985665008396 homodimer interface [polypeptide binding]; other site 985665008397 active site 985665008398 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 985665008399 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 985665008400 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665008401 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 985665008402 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 985665008403 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665008404 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 985665008405 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 985665008406 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 985665008407 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 985665008408 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 985665008409 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 985665008410 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 985665008411 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985665008412 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665008413 Walker A/P-loop; other site 985665008414 ATP binding site [chemical binding]; other site 985665008415 Q-loop/lid; other site 985665008416 ABC transporter signature motif; other site 985665008417 Walker B; other site 985665008418 D-loop; other site 985665008419 H-loop/switch region; other site 985665008420 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 985665008421 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 985665008422 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 985665008423 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 985665008424 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 985665008425 Peptidase family M23; Region: Peptidase_M23; pfam01551 985665008426 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 985665008427 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 985665008428 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 985665008429 putative active site [active] 985665008430 catalytic site [active] 985665008431 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 985665008432 putative active site [active] 985665008433 catalytic site [active] 985665008434 Uncharacterized conserved protein [Function unknown]; Region: COG1284 985665008435 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 985665008436 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 985665008437 LigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: LigD_Pol_like; cd04861 985665008438 nucleotide binding site [chemical binding]; other site 985665008439 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 985665008440 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 985665008441 active site 985665008442 dimer interface [polypeptide binding]; other site 985665008443 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 985665008444 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 985665008445 Ligand Binding Site [chemical binding]; other site 985665008446 Molecular Tunnel; other site 985665008447 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 985665008448 active site 985665008449 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 985665008450 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 985665008451 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 985665008452 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665008453 Walker A/P-loop; other site 985665008454 ATP binding site [chemical binding]; other site 985665008455 Q-loop/lid; other site 985665008456 ABC transporter signature motif; other site 985665008457 Walker B; other site 985665008458 D-loop; other site 985665008459 H-loop/switch region; other site 985665008460 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 985665008461 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 985665008462 putative DNA binding site [nucleotide binding]; other site 985665008463 putative homodimer interface [polypeptide binding]; other site 985665008464 Small acid-soluble spore protein H family; Region: SspH; pfam08141 985665008465 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 985665008466 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 985665008467 acetoacetate decarboxylase; Provisional; Region: PRK02265 985665008468 putative acyltransferase; Provisional; Region: PRK05790 985665008469 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 985665008470 dimer interface [polypeptide binding]; other site 985665008471 active site 985665008472 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 985665008473 DJ-1 family protein; Region: not_thiJ; TIGR01383 985665008474 conserved cys residue [active] 985665008475 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 985665008476 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665008477 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 985665008478 Isochorismatase family; Region: Isochorismatase; pfam00857 985665008479 catalytic triad [active] 985665008480 conserved cis-peptide bond; other site 985665008481 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 985665008482 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 985665008483 Glycoprotease family; Region: Peptidase_M22; pfam00814 985665008484 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 985665008485 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665008486 Coenzyme A binding pocket [chemical binding]; other site 985665008487 UGMP family protein; Validated; Region: PRK09604 985665008488 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 985665008489 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 985665008490 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 985665008491 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665008492 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665008493 ABC transporter; Region: ABC_tran_2; pfam12848 985665008494 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665008495 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 985665008496 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 985665008497 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 985665008498 trimer interface [polypeptide binding]; other site 985665008499 dimer interface [polypeptide binding]; other site 985665008500 putative active site [active] 985665008501 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 985665008502 MPT binding site; other site 985665008503 trimer interface [polypeptide binding]; other site 985665008504 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 985665008505 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 985665008506 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 985665008507 oligomerisation interface [polypeptide binding]; other site 985665008508 mobile loop; other site 985665008509 roof hairpin; other site 985665008510 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 985665008511 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 985665008512 ring oligomerisation interface [polypeptide binding]; other site 985665008513 ATP/Mg binding site [chemical binding]; other site 985665008514 stacking interactions; other site 985665008515 hinge regions; other site 985665008516 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 985665008517 DNA binding site [nucleotide binding] 985665008518 Int/Topo IB signature motif; other site 985665008519 active site 985665008520 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985665008521 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 985665008522 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 985665008523 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 985665008524 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 985665008525 putative NAD(P) binding site [chemical binding]; other site 985665008526 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 985665008527 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 985665008528 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665008529 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 985665008530 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665008531 Coenzyme A binding pocket [chemical binding]; other site 985665008532 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985665008533 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 985665008534 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 985665008535 DNA binding residues [nucleotide binding] 985665008536 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 985665008537 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665008538 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665008539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665008540 Predicted peptidase [General function prediction only]; Region: COG4099 985665008541 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 985665008542 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 985665008543 putative hydrophobic ligand binding site [chemical binding]; other site 985665008544 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 985665008545 stage V sporulation protein B; Region: spore_V_B; TIGR02900 985665008546 Putative amidase domain; Region: Amidase_6; pfam12671 985665008547 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 985665008548 active site 985665008549 putative catalytic site [active] 985665008550 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 985665008551 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 985665008552 NodB motif; other site 985665008553 active site 985665008554 catalytic site [active] 985665008555 metal binding site [ion binding]; metal-binding site 985665008556 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665008557 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 985665008558 dimer interface [polypeptide binding]; other site 985665008559 putative PBP binding loops; other site 985665008560 ABC-ATPase subunit interface; other site 985665008561 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665008562 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 985665008563 dimer interface [polypeptide binding]; other site 985665008564 conserved gate region; other site 985665008565 putative PBP binding loops; other site 985665008566 ABC-ATPase subunit interface; other site 985665008567 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665008568 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 985665008569 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665008570 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665008571 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 985665008572 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 985665008573 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 985665008574 HlyD family secretion protein; Region: HlyD_3; pfam13437 985665008575 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 985665008576 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 985665008577 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 985665008578 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 985665008579 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 985665008580 dimer interface [polypeptide binding]; other site 985665008581 conserved gate region; other site 985665008582 putative PBP binding loops; other site 985665008583 ABC-ATPase subunit interface; other site 985665008584 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 985665008585 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 985665008586 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 985665008587 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 985665008588 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 985665008589 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 985665008590 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 985665008591 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 985665008592 Walker A/P-loop; other site 985665008593 ATP binding site [chemical binding]; other site 985665008594 Q-loop/lid; other site 985665008595 ABC transporter signature motif; other site 985665008596 Walker B; other site 985665008597 D-loop; other site 985665008598 H-loop/switch region; other site 985665008599 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 985665008600 Predicted transcriptional regulators [Transcription]; Region: COG1510 985665008601 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 985665008602 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 985665008603 substrate binding pocket [chemical binding]; other site 985665008604 catalytic triad [active] 985665008605 Cache domain; Region: Cache_1; pfam02743 985665008606 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 985665008607 dimerization interface [polypeptide binding]; other site 985665008608 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665008609 dimer interface [polypeptide binding]; other site 985665008610 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 985665008611 putative CheW interface [polypeptide binding]; other site 985665008612 EamA-like transporter family; Region: EamA; pfam00892 985665008613 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985665008614 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 985665008615 Walker A/P-loop; other site 985665008616 ATP binding site [chemical binding]; other site 985665008617 Q-loop/lid; other site 985665008618 ABC transporter signature motif; other site 985665008619 Walker B; other site 985665008620 D-loop; other site 985665008621 H-loop/switch region; other site 985665008622 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665008623 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 985665008624 dimer interface [polypeptide binding]; other site 985665008625 phosphorylation site [posttranslational modification] 985665008626 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665008627 ATP binding site [chemical binding]; other site 985665008628 Mg2+ binding site [ion binding]; other site 985665008629 G-X-G motif; other site 985665008630 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665008631 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665008632 active site 985665008633 phosphorylation site [posttranslational modification] 985665008634 intermolecular recognition site; other site 985665008635 dimerization interface [polypeptide binding]; other site 985665008636 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 985665008637 DNA binding site [nucleotide binding] 985665008638 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 985665008639 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 985665008640 Potassium binding sites [ion binding]; other site 985665008641 Cesium cation binding sites [ion binding]; other site 985665008642 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 985665008643 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 985665008644 intersubunit interface [polypeptide binding]; other site 985665008645 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 985665008646 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 985665008647 alanine racemase; Reviewed; Region: alr; PRK00053 985665008648 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 985665008649 active site 985665008650 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985665008651 dimer interface [polypeptide binding]; other site 985665008652 substrate binding site [chemical binding]; other site 985665008653 catalytic residues [active] 985665008654 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 985665008655 PemK-like protein; Region: PemK; pfam02452 985665008656 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 985665008657 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 985665008658 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 985665008659 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 985665008660 RNA binding site [nucleotide binding]; other site 985665008661 hypothetical protein; Provisional; Region: PRK04351 985665008662 SprT homologues; Region: SprT; cl01182 985665008663 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 985665008664 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 985665008665 active site 985665008666 motif I; other site 985665008667 motif II; other site 985665008668 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 985665008669 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 985665008670 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 985665008671 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 985665008672 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665008673 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 985665008674 putative Zn2+ binding site [ion binding]; other site 985665008675 putative DNA binding site [nucleotide binding]; other site 985665008676 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985665008677 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 985665008678 non-specific DNA binding site [nucleotide binding]; other site 985665008679 salt bridge; other site 985665008680 sequence-specific DNA binding site [nucleotide binding]; other site 985665008681 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985665008682 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 985665008683 non-specific DNA binding site [nucleotide binding]; other site 985665008684 salt bridge; other site 985665008685 sequence-specific DNA binding site [nucleotide binding]; other site 985665008686 UreF; Region: UreF; pfam01730 985665008687 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 985665008688 catalytic residues [active] 985665008689 dimer interface [polypeptide binding]; other site 985665008690 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 985665008691 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 985665008692 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 985665008693 Soluble P-type ATPase [General function prediction only]; Region: COG4087 985665008694 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 985665008695 manganese transport protein MntH; Reviewed; Region: PRK00701 985665008696 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 985665008697 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 985665008698 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 985665008699 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 985665008700 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 985665008701 intersubunit interface [polypeptide binding]; other site 985665008702 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 985665008703 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 985665008704 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 985665008705 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 985665008706 dimer interface [polypeptide binding]; other site 985665008707 ABC-ATPase subunit interface; other site 985665008708 putative PBP binding regions; other site 985665008709 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 985665008710 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 985665008711 ABC-ATPase subunit interface; other site 985665008712 dimer interface [polypeptide binding]; other site 985665008713 putative PBP binding regions; other site 985665008714 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 985665008715 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 985665008716 Ligand Binding Site [chemical binding]; other site 985665008717 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 985665008718 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 985665008719 Ligand Binding Site [chemical binding]; other site 985665008720 AAA domain; Region: AAA_31; pfam13614 985665008721 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 985665008722 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 985665008723 ATP binding site [chemical binding]; other site 985665008724 Walker A motif; other site 985665008725 hexamer interface [polypeptide binding]; other site 985665008726 Walker B motif; other site 985665008727 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 985665008728 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 985665008729 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 985665008730 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 985665008731 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 985665008732 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 985665008733 phosphopeptide binding site; other site 985665008734 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665008735 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665008736 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 985665008737 dimerization interface [polypeptide binding]; other site 985665008738 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 985665008739 Tannase and feruloyl esterase; Region: Tannase; pfam07519 985665008740 Homeodomain-like domain; Region: HTH_23; pfam13384 985665008741 Winged helix-turn helix; Region: HTH_29; pfam13551 985665008742 Winged helix-turn helix; Region: HTH_33; pfam13592 985665008743 DDE superfamily endonuclease; Region: DDE_3; pfam13358 985665008744 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 985665008745 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 985665008746 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 985665008747 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 985665008748 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 985665008749 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 985665008750 TIGR01777 family protein; Region: yfcH 985665008751 putative NAD(P) binding site [chemical binding]; other site 985665008752 putative active site [active] 985665008753 endonuclease IV; Provisional; Region: PRK01060 985665008754 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 985665008755 AP (apurinic/apyrimidinic) site pocket; other site 985665008756 DNA interaction; other site 985665008757 Metal-binding active site; metal-binding site 985665008758 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 985665008759 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 985665008760 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 985665008761 putative active site [active] 985665008762 putative substrate binding site [chemical binding]; other site 985665008763 putative cosubstrate binding site; other site 985665008764 catalytic site [active] 985665008765 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 985665008766 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 985665008767 TPP-binding site [chemical binding]; other site 985665008768 dimer interface [polypeptide binding]; other site 985665008769 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 985665008770 PYR/PP interface [polypeptide binding]; other site 985665008771 dimer interface [polypeptide binding]; other site 985665008772 TPP binding site [chemical binding]; other site 985665008773 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985665008774 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 985665008775 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 985665008776 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 985665008777 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 985665008778 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 985665008779 active site 985665008780 dimer interface [polypeptide binding]; other site 985665008781 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 985665008782 dimer interface [polypeptide binding]; other site 985665008783 active site 985665008784 Uncharacterized conserved protein [Function unknown]; Region: COG1739 985665008785 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 985665008786 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 985665008787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665008788 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665008789 WHG domain; Region: WHG; pfam13305 985665008790 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 985665008791 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 985665008792 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 985665008793 Walker A/P-loop; other site 985665008794 ATP binding site [chemical binding]; other site 985665008795 Q-loop/lid; other site 985665008796 ABC transporter signature motif; other site 985665008797 Walker B; other site 985665008798 D-loop; other site 985665008799 H-loop/switch region; other site 985665008800 TOBE domain; Region: TOBE_2; pfam08402 985665008801 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 985665008802 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 985665008803 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665008804 DNA-binding site [nucleotide binding]; DNA binding site 985665008805 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 985665008806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665008807 homodimer interface [polypeptide binding]; other site 985665008808 catalytic residue [active] 985665008809 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 985665008810 EamA-like transporter family; Region: EamA; pfam00892 985665008811 EamA-like transporter family; Region: EamA; pfam00892 985665008812 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 985665008813 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 985665008814 active site 985665008815 motif I; other site 985665008816 motif II; other site 985665008817 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 985665008818 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 985665008819 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 985665008820 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 985665008821 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 985665008822 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 985665008823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665008824 homodimer interface [polypeptide binding]; other site 985665008825 catalytic residue [active] 985665008826 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 985665008827 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 985665008828 catalytic core [active] 985665008829 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 985665008830 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 985665008831 cobalamin binding residues [chemical binding]; other site 985665008832 putative BtuC binding residues; other site 985665008833 dimer interface [polypeptide binding]; other site 985665008834 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985665008835 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 985665008836 ABC-ATPase subunit interface; other site 985665008837 dimer interface [polypeptide binding]; other site 985665008838 putative PBP binding regions; other site 985665008839 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 985665008840 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 985665008841 Walker A/P-loop; other site 985665008842 ATP binding site [chemical binding]; other site 985665008843 Q-loop/lid; other site 985665008844 ABC transporter signature motif; other site 985665008845 Walker B; other site 985665008846 D-loop; other site 985665008847 H-loop/switch region; other site 985665008848 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 985665008849 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 985665008850 putative dimer interface [polypeptide binding]; other site 985665008851 active site pocket [active] 985665008852 putative cataytic base [active] 985665008853 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 985665008854 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 985665008855 cobalamin synthase; Reviewed; Region: cobS; PRK00235 985665008856 cobyric acid synthase; Provisional; Region: PRK00784 985665008857 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 985665008858 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 985665008859 catalytic triad [active] 985665008860 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 985665008861 dimerization interface [polypeptide binding]; other site 985665008862 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665008863 dimer interface [polypeptide binding]; other site 985665008864 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 985665008865 putative CheW interface [polypeptide binding]; other site 985665008866 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665008867 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985665008868 CAT RNA binding domain; Region: CAT_RBD; smart01061 985665008869 PRD domain; Region: PRD; pfam00874 985665008870 PRD domain; Region: PRD; pfam00874 985665008871 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 985665008872 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 985665008873 active site turn [active] 985665008874 phosphorylation site [posttranslational modification] 985665008875 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665008876 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 985665008877 HPr interaction site; other site 985665008878 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665008879 active site 985665008880 phosphorylation site [posttranslational modification] 985665008881 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 985665008882 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 985665008883 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 985665008884 S-layer homology domain; Region: SLH; pfam00395 985665008885 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 985665008886 Peptidase family M23; Region: Peptidase_M23; pfam01551 985665008887 3D domain; Region: 3D; cl01439 985665008888 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 985665008889 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 985665008890 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 985665008891 Disaggregatase related repeat; Region: Disaggr_repeat; pfam06848 985665008892 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 985665008893 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665008894 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 985665008895 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665008896 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 985665008897 DNA binding residues [nucleotide binding] 985665008898 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 985665008899 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 985665008900 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 985665008901 active site 985665008902 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 985665008903 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 985665008904 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665008905 Coenzyme A binding pocket [chemical binding]; other site 985665008906 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 985665008907 Uncharacterized conserved protein [Function unknown]; Region: COG2966 985665008908 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 985665008909 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 985665008910 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 985665008911 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 985665008912 motif II; other site 985665008913 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 985665008914 active site 985665008915 ATP binding site [chemical binding]; other site 985665008916 substrate binding site [chemical binding]; other site 985665008917 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 985665008918 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 985665008919 Malic enzyme, N-terminal domain; Region: malic; pfam00390 985665008920 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 985665008921 putative NAD(P) binding site [chemical binding]; other site 985665008922 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 985665008923 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 985665008924 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 985665008925 active site 985665008926 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 985665008927 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 985665008928 ATP binding site [chemical binding]; other site 985665008929 putative Mg++ binding site [ion binding]; other site 985665008930 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 985665008931 nucleotide binding region [chemical binding]; other site 985665008932 ATP-binding site [chemical binding]; other site 985665008933 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 985665008934 HRDC domain; Region: HRDC; pfam00570 985665008935 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 985665008936 Radical SAM superfamily; Region: Radical_SAM; pfam04055 985665008937 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 985665008938 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 985665008939 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 985665008940 active site 985665008941 dimer interface [polypeptide binding]; other site 985665008942 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 985665008943 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 985665008944 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 985665008945 S-adenosylmethionine binding site [chemical binding]; other site 985665008946 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 985665008947 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 985665008948 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665008949 Coenzyme A binding pocket [chemical binding]; other site 985665008950 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 985665008951 putative active site [active] 985665008952 nucleotide binding site [chemical binding]; other site 985665008953 nudix motif; other site 985665008954 putative metal binding site [ion binding]; other site 985665008955 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 985665008956 Phosphotransferase enzyme family; Region: APH; pfam01636 985665008957 active site 985665008958 substrate binding site [chemical binding]; other site 985665008959 ATP binding site [chemical binding]; other site 985665008960 Predicted acetyltransferase [General function prediction only]; Region: COG3981 985665008961 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 985665008962 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665008963 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665008964 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 985665008965 Amidohydrolase; Region: Amidohydro_2; pfam04909 985665008966 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 985665008967 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985665008968 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 985665008969 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665008970 Zn2+ binding site [ion binding]; other site 985665008971 Mg2+ binding site [ion binding]; other site 985665008972 SPFH domain / Band 7 family; Region: Band_7; pfam01145 985665008973 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985665008974 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 985665008975 DNA binding residues [nucleotide binding] 985665008976 dimerization interface [polypeptide binding]; other site 985665008977 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 985665008978 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 985665008979 S-adenosylmethionine binding site [chemical binding]; other site 985665008980 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 985665008981 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 985665008982 NAD(P) binding pocket [chemical binding]; other site 985665008983 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 985665008984 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 985665008985 motif II; other site 985665008986 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985665008987 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985665008988 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 985665008989 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 985665008990 active site 985665008991 catalytic triad [active] 985665008992 potential frameshift: common BLAST hit: gi|308068112|ref|YP_003869717.1| methyltransferase type 11 985665008993 HD domain; Region: HD_4; pfam13328 985665008994 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985665008995 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985665008996 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 985665008997 GIY-YIG motif/motif A; other site 985665008998 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 985665008999 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 985665009000 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 985665009001 Interdomain contacts; other site 985665009002 Cytokine receptor motif; other site 985665009003 RHS Repeat; Region: RHS_repeat; pfam05593 985665009004 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 985665009005 RHS Repeat; Region: RHS_repeat; pfam05593 985665009006 RHS Repeat; Region: RHS_repeat; pfam05593 985665009007 RHS Repeat; Region: RHS_repeat; pfam05593 985665009008 RHS Repeat; Region: RHS_repeat; pfam05593 985665009009 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 985665009010 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...; Region: Barstar_like; cl01048 985665009011 RNAase interaction site [polypeptide binding]; other site 985665009012 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 985665009013 HEAT repeats; Region: HEAT_2; pfam13646 985665009014 Transposase; Region: HTH_Tnp_1; cl17663 985665009015 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 985665009016 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 985665009017 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665009018 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665009019 H+ Antiporter protein; Region: 2A0121; TIGR00900 985665009020 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665009021 putative substrate translocation pore; other site 985665009022 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 985665009023 beta-galactosidase; Region: BGL; TIGR03356 985665009024 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 985665009025 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 985665009026 active site turn [active] 985665009027 phosphorylation site [posttranslational modification] 985665009028 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665009029 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985665009030 HPr interaction site; other site 985665009031 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665009032 active site 985665009033 phosphorylation site [posttranslational modification] 985665009034 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985665009035 CAT RNA binding domain; Region: CAT_RBD; smart01061 985665009036 PRD domain; Region: PRD; pfam00874 985665009037 PRD domain; Region: PRD; pfam00874 985665009038 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665009039 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665009040 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 985665009041 Walker A/P-loop; other site 985665009042 ATP binding site [chemical binding]; other site 985665009043 Q-loop/lid; other site 985665009044 ABC transporter signature motif; other site 985665009045 Walker B; other site 985665009046 D-loop; other site 985665009047 H-loop/switch region; other site 985665009048 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 985665009049 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 985665009050 TPP-binding site [chemical binding]; other site 985665009051 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 985665009052 dimer interface [polypeptide binding]; other site 985665009053 PYR/PP interface [polypeptide binding]; other site 985665009054 TPP binding site [chemical binding]; other site 985665009055 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 985665009056 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 985665009057 E3 interaction surface; other site 985665009058 lipoyl attachment site [posttranslational modification]; other site 985665009059 e3 binding domain; Region: E3_binding; pfam02817 985665009060 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 985665009061 metal-dependent hydrolase; Provisional; Region: PRK13291 985665009062 DinB superfamily; Region: DinB_2; pfam12867 985665009063 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 985665009064 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 985665009065 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 985665009066 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 985665009067 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 985665009068 S-adenosylmethionine binding site [chemical binding]; other site 985665009069 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 985665009070 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 985665009071 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 985665009072 S-adenosylmethionine binding site [chemical binding]; other site 985665009073 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 985665009074 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 985665009075 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 985665009076 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 985665009077 active site 985665009078 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 985665009079 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 985665009080 DXD motif; other site 985665009081 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 985665009082 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 985665009083 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 985665009084 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 985665009085 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 985665009086 23S rRNA binding site [nucleotide binding]; other site 985665009087 L21 binding site [polypeptide binding]; other site 985665009088 L13 binding site [polypeptide binding]; other site 985665009089 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 985665009090 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 985665009091 ligand binding site [chemical binding]; other site 985665009092 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 985665009093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665009094 Walker A/P-loop; other site 985665009095 ATP binding site [chemical binding]; other site 985665009096 Q-loop/lid; other site 985665009097 ABC transporter signature motif; other site 985665009098 Walker B; other site 985665009099 D-loop; other site 985665009100 H-loop/switch region; other site 985665009101 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 985665009102 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 985665009103 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 985665009104 TM-ABC transporter signature motif; other site 985665009105 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 985665009106 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 985665009107 TM-ABC transporter signature motif; other site 985665009108 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 985665009109 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665009110 Coenzyme A binding pocket [chemical binding]; other site 985665009111 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 985665009112 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 985665009113 PYR/PP interface [polypeptide binding]; other site 985665009114 dimer interface [polypeptide binding]; other site 985665009115 TPP binding site [chemical binding]; other site 985665009116 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 985665009117 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 985665009118 TPP-binding site [chemical binding]; other site 985665009119 dimer interface [polypeptide binding]; other site 985665009120 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 985665009121 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 985665009122 putative valine binding site [chemical binding]; other site 985665009123 dimer interface [polypeptide binding]; other site 985665009124 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 985665009125 ketol-acid reductoisomerase; Provisional; Region: PRK05479 985665009126 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 985665009127 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 985665009128 2-isopropylmalate synthase; Validated; Region: PRK00915 985665009129 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 985665009130 active site 985665009131 catalytic residues [active] 985665009132 metal binding site [ion binding]; metal-binding site 985665009133 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 985665009134 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 985665009135 tartrate dehydrogenase; Region: TTC; TIGR02089 985665009136 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 985665009137 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 985665009138 dimer interface [polypeptide binding]; other site 985665009139 decamer (pentamer of dimers) interface [polypeptide binding]; other site 985665009140 catalytic triad [active] 985665009141 peroxidatic and resolving cysteines [active] 985665009142 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 985665009143 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665009144 putative active site [active] 985665009145 heme pocket [chemical binding]; other site 985665009146 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 985665009147 dimer interface [polypeptide binding]; other site 985665009148 phosphorylation site [posttranslational modification] 985665009149 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665009150 ATP binding site [chemical binding]; other site 985665009151 Mg2+ binding site [ion binding]; other site 985665009152 G-X-G motif; other site 985665009153 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 985665009154 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 985665009155 metal binding site [ion binding]; metal-binding site 985665009156 active site 985665009157 I-site; other site 985665009158 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 985665009159 potential protein location (hypothetical protein HPL003_15525 [Paenibacillus sp. HPL-003]) that overlaps RNA (tRNA-G) 985665009160 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 985665009161 Pectate lyase; Region: Pec_lyase_C; cl01593 985665009162 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 985665009163 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 985665009164 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 985665009165 dimer interface [polypeptide binding]; other site 985665009166 motif 1; other site 985665009167 active site 985665009168 motif 2; other site 985665009169 motif 3; other site 985665009170 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 985665009171 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 985665009172 putative tRNA-binding site [nucleotide binding]; other site 985665009173 B3/4 domain; Region: B3_4; pfam03483 985665009174 tRNA synthetase B5 domain; Region: B5; smart00874 985665009175 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 985665009176 dimer interface [polypeptide binding]; other site 985665009177 motif 1; other site 985665009178 motif 3; other site 985665009179 motif 2; other site 985665009180 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 985665009181 Cell division protein ZapA; Region: ZapA; cl01146 985665009182 Membrane protein of unknown function; Region: DUF360; pfam04020 985665009183 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 985665009184 MutS domain III; Region: MutS_III; pfam05192 985665009185 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 985665009186 Walker A/P-loop; other site 985665009187 ATP binding site [chemical binding]; other site 985665009188 Q-loop/lid; other site 985665009189 ABC transporter signature motif; other site 985665009190 Walker B; other site 985665009191 D-loop; other site 985665009192 H-loop/switch region; other site 985665009193 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 985665009194 Smr domain; Region: Smr; pfam01713 985665009195 Predicted membrane protein [Function unknown]; Region: COG3766 985665009196 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 985665009197 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 985665009198 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665009199 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665009200 putative substrate translocation pore; other site 985665009201 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 985665009202 FAD dependent oxidoreductase; Region: DAO; pfam01266 985665009203 Coat F domain; Region: Coat_F; pfam07875 985665009204 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 985665009205 AsnC family; Region: AsnC_trans_reg; pfam01037 985665009206 hypothetical protein; Validated; Region: PRK07682 985665009207 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 985665009208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665009209 homodimer interface [polypeptide binding]; other site 985665009210 catalytic residue [active] 985665009211 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665009212 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 985665009213 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 985665009214 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 985665009215 RNA binding surface [nucleotide binding]; other site 985665009216 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 985665009217 active site 985665009218 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 985665009219 ArsC family; Region: ArsC; pfam03960 985665009220 putative ArsC-like catalytic residues; other site 985665009221 putative TRX-like catalytic residues [active] 985665009222 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 985665009223 5'-3' exonuclease; Region: 53EXOc; smart00475 985665009224 active site 985665009225 metal binding site 1 [ion binding]; metal-binding site 985665009226 putative 5' ssDNA interaction site; other site 985665009227 metal binding site 3; metal-binding site 985665009228 metal binding site 2 [ion binding]; metal-binding site 985665009229 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 985665009230 putative DNA binding site [nucleotide binding]; other site 985665009231 putative metal binding site [ion binding]; other site 985665009232 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985665009233 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 985665009234 nucleotide binding site [chemical binding]; other site 985665009235 HRDC domain; Region: HRDC; pfam00570 985665009236 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 985665009237 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 985665009238 oligomer interface [polypeptide binding]; other site 985665009239 metal binding site [ion binding]; metal-binding site 985665009240 metal binding site [ion binding]; metal-binding site 985665009241 putative Cl binding site [ion binding]; other site 985665009242 aspartate ring; other site 985665009243 basic sphincter; other site 985665009244 hydrophobic gate; other site 985665009245 periplasmic entrance; other site 985665009246 Homoserine O-succinyltransferase; Region: HTS; pfam04204 985665009247 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 985665009248 proposed active site lysine [active] 985665009249 conserved cys residue [active] 985665009250 cystathionine gamma-synthase; Reviewed; Region: PRK08247 985665009251 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 985665009252 homodimer interface [polypeptide binding]; other site 985665009253 substrate-cofactor binding pocket; other site 985665009254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665009255 catalytic residue [active] 985665009256 cystathionine beta-lyase; Provisional; Region: PRK08064 985665009257 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 985665009258 homodimer interface [polypeptide binding]; other site 985665009259 substrate-cofactor binding pocket; other site 985665009260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665009261 catalytic residue [active] 985665009262 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 985665009263 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 985665009264 FeS/SAM binding site; other site 985665009265 Uncharacterized conserved protein [Function unknown]; Region: COG1284 985665009266 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 985665009267 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 985665009268 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 985665009269 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 985665009270 TrkA-C domain; Region: TrkA_C; pfam02080 985665009271 YtxC-like family; Region: YtxC; pfam08812 985665009272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 985665009273 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 985665009274 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 985665009275 protein binding site [polypeptide binding]; other site 985665009276 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665009277 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665009278 active site 985665009279 phosphorylation site [posttranslational modification] 985665009280 intermolecular recognition site; other site 985665009281 dimerization interface [polypeptide binding]; other site 985665009282 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 985665009283 DNA binding site [nucleotide binding] 985665009284 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665009285 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 985665009286 dimerization interface [polypeptide binding]; other site 985665009287 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 985665009288 dimer interface [polypeptide binding]; other site 985665009289 phosphorylation site [posttranslational modification] 985665009290 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665009291 ATP binding site [chemical binding]; other site 985665009292 Mg2+ binding site [ion binding]; other site 985665009293 G-X-G motif; other site 985665009294 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 985665009295 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 985665009296 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 985665009297 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 985665009298 glutamine synthetase, type I; Region: GlnA; TIGR00653 985665009299 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 985665009300 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 985665009301 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 985665009302 homodimer interface [polypeptide binding]; other site 985665009303 substrate-cofactor binding pocket; other site 985665009304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665009305 catalytic residue [active] 985665009306 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 985665009307 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 985665009308 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 985665009309 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 985665009310 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985665009311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665009312 active site 985665009313 phosphorylation site [posttranslational modification] 985665009314 intermolecular recognition site; other site 985665009315 dimerization interface [polypeptide binding]; other site 985665009316 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 985665009317 DNA binding residues [nucleotide binding] 985665009318 dimerization interface [polypeptide binding]; other site 985665009319 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 985665009320 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 985665009321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665009322 homodimer interface [polypeptide binding]; other site 985665009323 catalytic residue [active] 985665009324 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 985665009325 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 985665009326 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 985665009327 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 985665009328 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 985665009329 Phosphotransferase enzyme family; Region: APH; pfam01636 985665009330 Phosphotransferase enzyme family; Region: APH; pfam01636 985665009331 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 985665009332 active site 985665009333 ATP binding site [chemical binding]; other site 985665009334 OPT oligopeptide transporter protein; Region: OPT; cl14607 985665009335 Protein of unknown function (DUF917); Region: DUF917; pfam06032 985665009336 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 985665009337 hypothetical protein; Provisional; Region: PRK10481 985665009338 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 985665009339 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 985665009340 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 985665009341 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 985665009342 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 985665009343 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665009344 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665009345 active site 985665009346 phosphorylation site [posttranslational modification] 985665009347 intermolecular recognition site; other site 985665009348 dimerization interface [polypeptide binding]; other site 985665009349 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 985665009350 DNA binding site [nucleotide binding] 985665009351 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 985665009352 SpoVR like protein; Region: SpoVR; pfam04293 985665009353 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 985665009354 Predicted membrane protein [Function unknown]; Region: COG4392 985665009355 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 985665009356 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 985665009357 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 985665009358 non-specific DNA binding site [nucleotide binding]; other site 985665009359 salt bridge; other site 985665009360 sequence-specific DNA binding site [nucleotide binding]; other site 985665009361 Cupin domain; Region: Cupin_2; pfam07883 985665009362 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 985665009363 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 985665009364 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665009365 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 985665009366 active site 985665009367 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 985665009368 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 985665009369 putative sugar binding sites [chemical binding]; other site 985665009370 Q-X-W motif; other site 985665009371 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 985665009372 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 985665009373 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 985665009374 active site 985665009375 S-layer homology domain; Region: SLH; pfam00395 985665009376 S-layer homology domain; Region: SLH; pfam00395 985665009377 S-layer homology domain; Region: SLH; pfam00395 985665009378 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 985665009379 active site 985665009380 EDD domain protein, DegV family; Region: DegV; TIGR00762 985665009381 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 985665009382 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 985665009383 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 985665009384 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 985665009385 dimer interface [polypeptide binding]; other site 985665009386 ADP-ribose binding site [chemical binding]; other site 985665009387 active site 985665009388 nudix motif; other site 985665009389 metal binding site [ion binding]; metal-binding site 985665009390 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 985665009391 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 985665009392 DNA binding residues [nucleotide binding] 985665009393 dimer interface [polypeptide binding]; other site 985665009394 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 985665009395 S-adenosylmethionine binding site [chemical binding]; other site 985665009396 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 985665009397 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 985665009398 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 985665009399 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 985665009400 siderophore binding site; other site 985665009401 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985665009402 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 985665009403 ABC-ATPase subunit interface; other site 985665009404 dimer interface [polypeptide binding]; other site 985665009405 putative PBP binding regions; other site 985665009406 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 985665009407 ABC-ATPase subunit interface; other site 985665009408 dimer interface [polypeptide binding]; other site 985665009409 putative PBP binding regions; other site 985665009410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 985665009411 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 985665009412 Probable transposase; Region: OrfB_IS605; pfam01385 985665009413 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 985665009414 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 985665009415 dimer interface [polypeptide binding]; other site 985665009416 phosphorylation site [posttranslational modification] 985665009417 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665009418 ATP binding site [chemical binding]; other site 985665009419 Mg2+ binding site [ion binding]; other site 985665009420 G-X-G motif; other site 985665009421 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 985665009422 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 985665009423 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 985665009424 Rrf2 family protein; Region: rrf2_super; TIGR00738 985665009425 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 985665009426 putative DNA binding site [nucleotide binding]; other site 985665009427 putative Zn2+ binding site [ion binding]; other site 985665009428 Domain of unknown function (DUF1805); Region: DUF1805; cl01339 985665009429 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 985665009430 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 985665009431 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 985665009432 Phosphotransferase enzyme family; Region: APH; pfam01636 985665009433 Ferritin-like domain; Region: Ferritin; pfam00210 985665009434 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 985665009435 dimerization interface [polypeptide binding]; other site 985665009436 DPS ferroxidase diiron center [ion binding]; other site 985665009437 ion pore; other site 985665009438 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 985665009439 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 985665009440 Walker A/P-loop; other site 985665009441 ATP binding site [chemical binding]; other site 985665009442 Q-loop/lid; other site 985665009443 ABC transporter signature motif; other site 985665009444 Walker B; other site 985665009445 D-loop; other site 985665009446 H-loop/switch region; other site 985665009447 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 985665009448 FeS assembly protein SufD; Region: sufD; TIGR01981 985665009449 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 985665009450 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 985665009451 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985665009452 catalytic residue [active] 985665009453 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 985665009454 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 985665009455 trimerization site [polypeptide binding]; other site 985665009456 active site 985665009457 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 985665009458 FeS assembly protein SufB; Region: sufB; TIGR01980 985665009459 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 985665009460 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665009461 Zn2+ binding site [ion binding]; other site 985665009462 Mg2+ binding site [ion binding]; other site 985665009463 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 985665009464 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 985665009465 active site 985665009466 metal binding site [ion binding]; metal-binding site 985665009467 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 985665009468 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 985665009469 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665009470 Zn2+ binding site [ion binding]; other site 985665009471 Mg2+ binding site [ion binding]; other site 985665009472 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 985665009473 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 985665009474 FeS/SAM binding site; other site 985665009475 YfkB-like domain; Region: YfkB; pfam08756 985665009476 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 985665009477 Domain of unknown function DUF21; Region: DUF21; pfam01595 985665009478 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 985665009479 Transporter associated domain; Region: CorC_HlyC; smart01091 985665009480 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 985665009481 CotJB protein; Region: CotJB; pfam12652 985665009482 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 985665009483 dimanganese center [ion binding]; other site 985665009484 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 985665009485 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 985665009486 putative metal binding site; other site 985665009487 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 985665009488 binding surface 985665009489 TPR motif; other site 985665009490 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 985665009491 active site 985665009492 Methyltransferase domain; Region: Methyltransf_23; pfam13489 985665009493 Methyltransferase domain; Region: Methyltransf_11; pfam08241 985665009494 Methyltransferase domain; Region: Methyltransf_31; pfam13847 985665009495 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 985665009496 S-adenosylmethionine binding site [chemical binding]; other site 985665009497 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 985665009498 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 985665009499 motif II; other site 985665009500 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 985665009501 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 985665009502 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 985665009503 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 985665009504 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 985665009505 hypothetical protein; Provisional; Region: PRK13676 985665009506 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 985665009507 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665009508 DNA-binding site [nucleotide binding]; DNA binding site 985665009509 DRTGG domain; Region: DRTGG; pfam07085 985665009510 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 985665009511 Thioesterase superfamily; Region: 4HBT; pfam03061 985665009512 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 985665009513 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 985665009514 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 985665009515 active site 985665009516 PHP Thumb interface [polypeptide binding]; other site 985665009517 metal binding site [ion binding]; metal-binding site 985665009518 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 985665009519 generic binding surface II; other site 985665009520 generic binding surface I; other site 985665009521 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 985665009522 tetramer interfaces [polypeptide binding]; other site 985665009523 binuclear metal-binding site [ion binding]; other site 985665009524 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 985665009525 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 985665009526 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 985665009527 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 985665009528 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 985665009529 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 985665009530 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; cd00288 985665009531 domain interfaces; other site 985665009532 active site 985665009533 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665009534 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 985665009535 putative DNA binding site [nucleotide binding]; other site 985665009536 putative Zn2+ binding site [ion binding]; other site 985665009537 LysR substrate binding domain; Region: LysR_substrate; pfam03466 985665009538 dimerization interface [polypeptide binding]; other site 985665009539 PBP superfamily domain; Region: PBP_like_2; cl17296 985665009540 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 985665009541 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 985665009542 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 985665009543 dimer interface [polypeptide binding]; other site 985665009544 conserved gate region; other site 985665009545 putative PBP binding loops; other site 985665009546 ABC-ATPase subunit interface; other site 985665009547 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 985665009548 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 985665009549 dimer interface [polypeptide binding]; other site 985665009550 conserved gate region; other site 985665009551 putative PBP binding loops; other site 985665009552 ABC-ATPase subunit interface; other site 985665009553 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 985665009554 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 985665009555 Walker A/P-loop; other site 985665009556 ATP binding site [chemical binding]; other site 985665009557 Q-loop/lid; other site 985665009558 ABC transporter signature motif; other site 985665009559 Walker B; other site 985665009560 D-loop; other site 985665009561 H-loop/switch region; other site 985665009562 potential frameshift: common BLAST hit: gi|310641208|ref|YP_003945966.1| pectate lyase 985665009563 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 985665009564 active site 985665009565 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 985665009566 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 985665009567 Domain of unknown function DUF20; Region: UPF0118; pfam01594 985665009568 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 985665009569 dimer interface [polypeptide binding]; other site 985665009570 Citrate synthase; Region: Citrate_synt; pfam00285 985665009571 active site 985665009572 citrylCoA binding site [chemical binding]; other site 985665009573 oxalacetate/citrate binding site [chemical binding]; other site 985665009574 coenzyme A binding site [chemical binding]; other site 985665009575 catalytic triad [active] 985665009576 isocitrate dehydrogenase; Validated; Region: PRK06451 985665009577 isocitrate dehydrogenase; Reviewed; Region: PRK07006 985665009578 malate dehydrogenase; Reviewed; Region: PRK06223 985665009579 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 985665009580 NAD(P) binding site [chemical binding]; other site 985665009581 dimer interface [polypeptide binding]; other site 985665009582 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985665009583 substrate binding site [chemical binding]; other site 985665009584 short chain dehydrogenase; Provisional; Region: PRK06701 985665009585 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 985665009586 NAD binding site [chemical binding]; other site 985665009587 metal binding site [ion binding]; metal-binding site 985665009588 active site 985665009589 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 985665009590 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 985665009591 dimerization interface [polypeptide binding]; other site 985665009592 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 985665009593 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 985665009594 dimer interface [polypeptide binding]; other site 985665009595 phosphorylation site [posttranslational modification] 985665009596 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665009597 ATP binding site [chemical binding]; other site 985665009598 Mg2+ binding site [ion binding]; other site 985665009599 G-X-G motif; other site 985665009600 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665009601 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665009602 active site 985665009603 phosphorylation site [posttranslational modification] 985665009604 intermolecular recognition site; other site 985665009605 dimerization interface [polypeptide binding]; other site 985665009606 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 985665009607 DNA binding site [nucleotide binding] 985665009608 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 985665009609 FOG: CBS domain [General function prediction only]; Region: COG0517 985665009610 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665009611 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665009612 dimer interface [polypeptide binding]; other site 985665009613 putative CheW interface [polypeptide binding]; other site 985665009614 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 985665009615 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 985665009616 Walker A/P-loop; other site 985665009617 ATP binding site [chemical binding]; other site 985665009618 Q-loop/lid; other site 985665009619 ABC transporter signature motif; other site 985665009620 Walker B; other site 985665009621 D-loop; other site 985665009622 H-loop/switch region; other site 985665009623 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 985665009624 PhoU domain; Region: PhoU; pfam01895 985665009625 PhoU domain; Region: PhoU; pfam01895 985665009626 DNA polymerase I; Provisional; Region: PRK05755 985665009627 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 985665009628 active site 985665009629 metal binding site 1 [ion binding]; metal-binding site 985665009630 putative 5' ssDNA interaction site; other site 985665009631 metal binding site 3; metal-binding site 985665009632 metal binding site 2 [ion binding]; metal-binding site 985665009633 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 985665009634 putative DNA binding site [nucleotide binding]; other site 985665009635 putative metal binding site [ion binding]; other site 985665009636 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 985665009637 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 985665009638 active site 985665009639 DNA binding site [nucleotide binding] 985665009640 catalytic site [active] 985665009641 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 985665009642 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 985665009643 DNA binding site [nucleotide binding] 985665009644 catalytic residue [active] 985665009645 H2TH interface [polypeptide binding]; other site 985665009646 putative catalytic residues [active] 985665009647 turnover-facilitating residue; other site 985665009648 intercalation triad [nucleotide binding]; other site 985665009649 8OG recognition residue [nucleotide binding]; other site 985665009650 putative reading head residues; other site 985665009651 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 985665009652 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 985665009653 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 985665009654 Domain of unknown function DUF; Region: DUF204; pfam02659 985665009655 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 985665009656 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 985665009657 CoA-binding site [chemical binding]; other site 985665009658 ATP-binding [chemical binding]; other site 985665009659 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 985665009660 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 985665009661 N-acetyl-D-glucosamine binding site [chemical binding]; other site 985665009662 catalytic residue [active] 985665009663 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 985665009664 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 985665009665 ATP cone domain; Region: ATP-cone; pfam03477 985665009666 Transposase [DNA replication, recombination, and repair]; Region: COG5421 985665009667 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 985665009668 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 985665009669 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985665009670 MarR family; Region: MarR; pfam01047 985665009671 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 985665009672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665009673 NAD(P) binding site [chemical binding]; other site 985665009674 active site 985665009675 Domain of unknown function (DUF718); Region: DUF718; cl01281 985665009676 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665009677 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 985665009678 dimerization interface [polypeptide binding]; other site 985665009679 Histidine kinase; Region: His_kinase; pfam06580 985665009680 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665009681 ATP binding site [chemical binding]; other site 985665009682 Mg2+ binding site [ion binding]; other site 985665009683 G-X-G motif; other site 985665009684 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 985665009685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665009686 active site 985665009687 phosphorylation site [posttranslational modification] 985665009688 intermolecular recognition site; other site 985665009689 dimerization interface [polypeptide binding]; other site 985665009690 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665009691 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665009692 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665009693 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 985665009694 MFS/sugar transport protein; Region: MFS_2; pfam13347 985665009695 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665009696 putative substrate translocation pore; other site 985665009697 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 985665009698 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 985665009699 Metal-binding active site; metal-binding site 985665009700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665009701 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665009702 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665009703 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 985665009704 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 985665009705 intersubunit interface [polypeptide binding]; other site 985665009706 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 985665009707 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 985665009708 putative ligand binding residues [chemical binding]; other site 985665009709 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985665009710 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 985665009711 ABC-ATPase subunit interface; other site 985665009712 dimer interface [polypeptide binding]; other site 985665009713 putative PBP binding regions; other site 985665009714 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985665009715 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 985665009716 ABC-ATPase subunit interface; other site 985665009717 dimer interface [polypeptide binding]; other site 985665009718 putative PBP binding regions; other site 985665009719 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 985665009720 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 985665009721 DNA binding residues [nucleotide binding] 985665009722 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 985665009723 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 985665009724 FeS/SAM binding site; other site 985665009725 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 985665009726 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665009727 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665009728 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 985665009729 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985665009730 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665009731 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 985665009732 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 985665009733 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665009734 putative substrate translocation pore; other site 985665009735 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 985665009736 PAS domain; Region: PAS_9; pfam13426 985665009737 putative active site [active] 985665009738 heme pocket [chemical binding]; other site 985665009739 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 985665009740 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 985665009741 [4Fe-4S] binding site [ion binding]; other site 985665009742 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 985665009743 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 985665009744 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 985665009745 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 985665009746 molybdopterin cofactor binding site; other site 985665009747 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 985665009748 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; cl00470 985665009749 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 985665009750 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 985665009751 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 985665009752 phosphoenolpyruvate synthase; Validated; Region: PRK06241 985665009753 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 985665009754 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 985665009755 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 985665009756 dimerization interface [polypeptide binding]; other site 985665009757 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665009758 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665009759 dimer interface [polypeptide binding]; other site 985665009760 putative CheW interface [polypeptide binding]; other site 985665009761 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 985665009762 SpoVA protein; Region: SpoVA; cl04298 985665009763 stage V sporulation protein AD; Provisional; Region: PRK12404 985665009764 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 985665009765 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 985665009766 Predicted membrane protein [Function unknown]; Region: COG2323 985665009767 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 985665009768 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 985665009769 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 985665009770 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 985665009771 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 985665009772 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 985665009773 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 985665009774 putative substrate binding site [chemical binding]; other site 985665009775 putative ATP binding site [chemical binding]; other site 985665009776 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 985665009777 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 985665009778 active site 985665009779 phosphorylation site [posttranslational modification] 985665009780 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 985665009781 active site 985665009782 P-loop; other site 985665009783 phosphorylation site [posttranslational modification] 985665009784 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 985665009785 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665009786 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665009787 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 985665009788 dimerization interface [polypeptide binding]; other site 985665009789 active site 1 [active] 985665009790 dimer interface [polypeptide binding]; other site 985665009791 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 985665009792 hexamer interface [polypeptide binding]; other site 985665009793 active site 2 [active] 985665009794 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 985665009795 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985665009796 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 985665009797 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665009798 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665009799 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 985665009800 dimerization interface [polypeptide binding]; other site 985665009801 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 985665009802 substrate binding site [chemical binding]; other site 985665009803 THF binding site; other site 985665009804 zinc-binding site [ion binding]; other site 985665009805 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985665009806 PRD domain; Region: PRD; pfam00874 985665009807 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 985665009808 active site 985665009809 P-loop; other site 985665009810 phosphorylation site [posttranslational modification] 985665009811 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 985665009812 active site 985665009813 phosphorylation site [posttranslational modification] 985665009814 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 985665009815 active site 985665009816 P-loop; other site 985665009817 phosphorylation site [posttranslational modification] 985665009818 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 985665009819 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 985665009820 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 985665009821 TPP-binding site [chemical binding]; other site 985665009822 dimer interface [polypeptide binding]; other site 985665009823 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 985665009824 PYR/PP interface [polypeptide binding]; other site 985665009825 dimer interface [polypeptide binding]; other site 985665009826 TPP binding site [chemical binding]; other site 985665009827 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985665009828 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 985665009829 non-specific DNA binding site [nucleotide binding]; other site 985665009830 salt bridge; other site 985665009831 sequence-specific DNA binding site [nucleotide binding]; other site 985665009832 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665009833 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665009834 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 985665009835 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 985665009836 heat shock protein 90; Provisional; Region: PRK05218 985665009837 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665009838 ATP binding site [chemical binding]; other site 985665009839 Mg2+ binding site [ion binding]; other site 985665009840 G-X-G motif; other site 985665009841 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 985665009842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665009843 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 985665009844 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 985665009845 dimer interface [polypeptide binding]; other site 985665009846 active site 985665009847 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985665009848 catalytic residues [active] 985665009849 substrate binding site [chemical binding]; other site 985665009850 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 985665009851 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 985665009852 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 985665009853 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 985665009854 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 985665009855 metal binding site [ion binding]; metal-binding site 985665009856 ligand binding site [chemical binding]; other site 985665009857 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 985665009858 active site 985665009859 catalytic triad [active] 985665009860 oxyanion hole [active] 985665009861 Cupin domain; Region: Cupin_2; pfam07883 985665009862 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665009863 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665009864 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665009865 Response regulator receiver domain; Region: Response_reg; pfam00072 985665009866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665009867 active site 985665009868 phosphorylation site [posttranslational modification] 985665009869 intermolecular recognition site; other site 985665009870 dimerization interface [polypeptide binding]; other site 985665009871 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665009872 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665009873 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665009874 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 985665009875 dimerization interface [polypeptide binding]; other site 985665009876 Histidine kinase; Region: His_kinase; pfam06580 985665009877 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665009878 ATP binding site [chemical binding]; other site 985665009879 Mg2+ binding site [ion binding]; other site 985665009880 G-X-G motif; other site 985665009881 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 985665009882 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665009883 active site 985665009884 phosphorylation site [posttranslational modification] 985665009885 intermolecular recognition site; other site 985665009886 dimerization interface [polypeptide binding]; other site 985665009887 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665009888 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665009889 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 985665009890 dimer interface [polypeptide binding]; other site 985665009891 conserved gate region; other site 985665009892 putative PBP binding loops; other site 985665009893 ABC-ATPase subunit interface; other site 985665009894 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665009895 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 985665009896 dimer interface [polypeptide binding]; other site 985665009897 conserved gate region; other site 985665009898 ABC-ATPase subunit interface; other site 985665009899 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 985665009900 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 985665009901 inhibitor binding site; inhibition site 985665009902 active site 985665009903 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 985665009904 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 985665009905 substrate binding site [chemical binding]; other site 985665009906 active site 985665009907 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 985665009908 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 985665009909 substrate binding site [chemical binding]; other site 985665009910 active site 985665009911 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 985665009912 metal binding site [ion binding]; metal-binding site 985665009913 ligand binding site [chemical binding]; other site 985665009914 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 985665009915 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 985665009916 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 985665009917 Ca binding site [ion binding]; other site 985665009918 Ca binding site (active) [ion binding]; other site 985665009919 ligand binding site [chemical binding]; other site 985665009920 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 985665009921 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 985665009922 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 985665009923 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 985665009924 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 985665009925 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 985665009926 active site 985665009927 metal binding site [ion binding]; metal-binding site 985665009928 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 985665009929 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665009930 DNA-binding site [nucleotide binding]; DNA binding site 985665009931 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 985665009932 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 985665009933 putative dimerization interface [polypeptide binding]; other site 985665009934 putative ligand binding site [chemical binding]; other site 985665009935 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 985665009936 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 985665009937 non-specific DNA binding site [nucleotide binding]; other site 985665009938 salt bridge; other site 985665009939 sequence-specific DNA binding site [nucleotide binding]; other site 985665009940 Nuclease-related domain; Region: NERD; pfam08378 985665009941 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 985665009942 Family description; Region: UvrD_C_2; pfam13538 985665009943 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665009944 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 985665009945 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 985665009946 NodB motif; other site 985665009947 active site 985665009948 catalytic site [active] 985665009949 Zn binding site [ion binding]; other site 985665009950 Holin family; Region: Phage_holin_4; pfam05105 985665009951 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 985665009952 Protein of unknown function DUF86; Region: DUF86; cl01031 985665009953 Predicted transcriptional regulator [Transcription]; Region: COG2345 985665009954 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 985665009955 putative DNA binding site [nucleotide binding]; other site 985665009956 putative Zn2+ binding site [ion binding]; other site 985665009957 YtxH-like protein; Region: YtxH; pfam12732 985665009958 glutamate racemase; Provisional; Region: PRK00865 985665009959 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985665009960 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 985665009961 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 985665009962 putative active site [active] 985665009963 Zn binding site [ion binding]; other site 985665009964 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 985665009965 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 985665009966 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 985665009967 Sulfatase; Region: Sulfatase; pfam00884 985665009968 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 985665009969 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 985665009970 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 985665009971 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 985665009972 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 985665009973 S-adenosylmethionine binding site [chemical binding]; other site 985665009974 drug efflux system protein MdtG; Provisional; Region: PRK09874 985665009975 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665009976 putative substrate translocation pore; other site 985665009977 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 985665009978 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 985665009979 substrate binding site [chemical binding]; other site 985665009980 active site 985665009981 ferrochelatase; Provisional; Region: PRK12435 985665009982 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 985665009983 C-terminal domain interface [polypeptide binding]; other site 985665009984 active site 985665009985 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 985665009986 active site 985665009987 N-terminal domain interface [polypeptide binding]; other site 985665009988 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 985665009989 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 985665009990 The Sema domain, a protein interacting module, of semaphorins and plexins; Region: Sema; cl15693 985665009991 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 985665009992 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 985665009993 putative active site [active] 985665009994 putative metal binding site [ion binding]; other site 985665009995 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 985665009996 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 985665009997 active site 985665009998 catalytic site [active] 985665009999 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 985665010000 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 985665010001 Integral membrane protein DUF92; Region: DUF92; pfam01940 985665010002 potential frameshift: common BLAST hit: gi|308068460|ref|YP_003870065.1| transcriptional regulator 985665010003 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 985665010004 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665010005 Walker A/P-loop; other site 985665010006 ATP binding site [chemical binding]; other site 985665010007 Q-loop/lid; other site 985665010008 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665010009 ABC transporter signature motif; other site 985665010010 Walker B; other site 985665010011 D-loop; other site 985665010012 ABC transporter; Region: ABC_tran_2; pfam12848 985665010013 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665010014 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 985665010015 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 985665010016 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 985665010017 putative oligomer interface [polypeptide binding]; other site 985665010018 putative active site [active] 985665010019 metal binding site [ion binding]; metal-binding site 985665010020 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 985665010021 oligoendopeptidase F; Region: pepF; TIGR00181 985665010022 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 985665010023 active site 985665010024 Zn binding site [ion binding]; other site 985665010025 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 985665010026 DNA-binding site [nucleotide binding]; DNA binding site 985665010027 RNA-binding motif; other site 985665010028 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 985665010029 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 985665010030 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 985665010031 6-phosphofructokinase; Provisional; Region: PRK03202 985665010032 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 985665010033 active site 985665010034 ADP/pyrophosphate binding site [chemical binding]; other site 985665010035 dimerization interface [polypeptide binding]; other site 985665010036 allosteric effector site; other site 985665010037 fructose-1,6-bisphosphate binding site; other site 985665010038 Protein of unknown function (DUF3906); Region: DUF3906; pfam13046 985665010039 multidrug efflux protein; Reviewed; Region: PRK01766 985665010040 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 985665010041 cation binding site [ion binding]; other site 985665010042 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 985665010043 Uncharacterized conserved protein [Function unknown]; Region: COG1284 985665010044 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 985665010045 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 985665010046 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 985665010047 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 985665010048 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 985665010049 ATP binding site [chemical binding]; other site 985665010050 Mg++ binding site [ion binding]; other site 985665010051 motif III; other site 985665010052 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 985665010053 nucleotide binding region [chemical binding]; other site 985665010054 ATP-binding site [chemical binding]; other site 985665010055 Protein of unknown function, DUF624; Region: DUF624; cl02369 985665010056 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 985665010057 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 985665010058 dimer interface [polypeptide binding]; other site 985665010059 catalytic triad [active] 985665010060 peroxidatic and resolving cysteines [active] 985665010061 Rhomboid family; Region: Rhomboid; pfam01694 985665010062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665010063 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665010064 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 985665010065 putative dimerization interface [polypeptide binding]; other site 985665010066 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 985665010067 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 985665010068 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 985665010069 DNA binding residues [nucleotide binding] 985665010070 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 985665010071 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 985665010072 metal binding triad; other site 985665010073 hypothetical protein; Provisional; Region: PRK07740 985665010074 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 985665010075 active site 985665010076 catalytic site [active] 985665010077 substrate binding site [chemical binding]; other site 985665010078 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 985665010079 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 985665010080 catalytic residues [active] 985665010081 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 985665010082 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 985665010083 active site 985665010084 catalytic residues [active] 985665010085 metal binding site [ion binding]; metal-binding site 985665010086 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 985665010087 DNA polymerase IV; Validated; Region: PRK01810 985665010088 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 985665010089 active site 985665010090 DNA binding site [nucleotide binding] 985665010091 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 985665010092 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 985665010093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 985665010094 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 985665010095 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 985665010096 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 985665010097 quinone interaction residues [chemical binding]; other site 985665010098 active site 985665010099 catalytic residues [active] 985665010100 FMN binding site [chemical binding]; other site 985665010101 substrate binding site [chemical binding]; other site 985665010102 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 985665010103 synthetase active site [active] 985665010104 NTP binding site [chemical binding]; other site 985665010105 metal binding site [ion binding]; metal-binding site 985665010106 Domain of unknown function (DUF309); Region: DUF309; pfam03745 985665010107 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 985665010108 catalytic residues [active] 985665010109 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 985665010110 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 985665010111 S-adenosylmethionine binding site [chemical binding]; other site 985665010112 Uncharacterized conserved protein [Function unknown]; Region: COG3270 985665010113 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 985665010114 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 985665010115 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 985665010116 RNA binding surface [nucleotide binding]; other site 985665010117 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 985665010118 active site 985665010119 uracil binding [chemical binding]; other site 985665010120 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 985665010121 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 985665010122 metal binding site [ion binding]; metal-binding site 985665010123 active site 985665010124 I-site; other site 985665010125 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665010126 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 985665010127 Uncharacterized membrane protein [Function unknown]; Region: COG3949 985665010128 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 985665010129 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 985665010130 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985665010131 active site 985665010132 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985665010133 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; cd00995 985665010134 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665010135 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 985665010136 dimer interface [polypeptide binding]; other site 985665010137 conserved gate region; other site 985665010138 putative PBP binding loops; other site 985665010139 ABC-ATPase subunit interface; other site 985665010140 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 985665010141 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 985665010142 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 985665010143 dimer interface [polypeptide binding]; other site 985665010144 conserved gate region; other site 985665010145 putative PBP binding loops; other site 985665010146 ABC-ATPase subunit interface; other site 985665010147 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985665010148 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665010149 Walker A/P-loop; other site 985665010150 ATP binding site [chemical binding]; other site 985665010151 Q-loop/lid; other site 985665010152 ABC transporter signature motif; other site 985665010153 Walker B; other site 985665010154 D-loop; other site 985665010155 H-loop/switch region; other site 985665010156 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985665010157 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985665010158 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665010159 Walker A/P-loop; other site 985665010160 ATP binding site [chemical binding]; other site 985665010161 Q-loop/lid; other site 985665010162 ABC transporter signature motif; other site 985665010163 Walker B; other site 985665010164 D-loop; other site 985665010165 H-loop/switch region; other site 985665010166 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985665010167 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 985665010168 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985665010169 catalytic residue [active] 985665010170 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 985665010171 Amidohydrolase; Region: Amidohydro_4; pfam13147 985665010172 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 985665010173 active site 985665010174 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 985665010175 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 985665010176 methionine sulfoxide reductase A; Provisional; Region: PRK14054 985665010177 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 985665010178 NodB motif; other site 985665010179 putative active site [active] 985665010180 putative catalytic site [active] 985665010181 Zn binding site [ion binding]; other site 985665010182 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 985665010183 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 985665010184 active site 985665010185 metal binding site [ion binding]; metal-binding site 985665010186 YqzE-like protein; Region: YqzE; pfam14038 985665010187 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 985665010188 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 985665010189 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 985665010190 ATP binding site [chemical binding]; other site 985665010191 putative Mg++ binding site [ion binding]; other site 985665010192 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 985665010193 nucleotide binding region [chemical binding]; other site 985665010194 ATP-binding site [chemical binding]; other site 985665010195 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 985665010196 salt bridge; other site 985665010197 non-specific DNA binding site [nucleotide binding]; other site 985665010198 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985665010199 sequence-specific DNA binding site [nucleotide binding]; other site 985665010200 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 985665010201 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 985665010202 dimer interface [polypeptide binding]; other site 985665010203 active site 985665010204 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665010205 Coenzyme A binding pocket [chemical binding]; other site 985665010206 Predicted transcriptional regulator [Transcription]; Region: COG2378 985665010207 HTH domain; Region: HTH_11; pfam08279 985665010208 WYL domain; Region: WYL; pfam13280 985665010209 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 985665010210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 985665010211 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 985665010212 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665010213 putative substrate translocation pore; other site 985665010214 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665010215 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665010216 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 985665010217 classical (c) SDRs; Region: SDR_c; cd05233 985665010218 NAD(P) binding site [chemical binding]; other site 985665010219 active site 985665010220 hypothetical protein; Validated; Region: PRK07682 985665010221 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 985665010222 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665010223 homodimer interface [polypeptide binding]; other site 985665010224 catalytic residue [active] 985665010225 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 985665010226 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 985665010227 Predicted transcriptional regulator [Transcription]; Region: COG4189 985665010228 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 985665010229 dimerization interface [polypeptide binding]; other site 985665010230 putative DNA binding site [nucleotide binding]; other site 985665010231 putative Zn2+ binding site [ion binding]; other site 985665010232 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665010233 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665010234 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 985665010235 putative PBP binding loops; other site 985665010236 dimer interface [polypeptide binding]; other site 985665010237 ABC-ATPase subunit interface; other site 985665010238 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665010239 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 985665010240 dimer interface [polypeptide binding]; other site 985665010241 conserved gate region; other site 985665010242 putative PBP binding loops; other site 985665010243 ABC-ATPase subunit interface; other site 985665010244 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 985665010245 substrate binding site [chemical binding]; other site 985665010246 active site 985665010247 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 985665010248 active site 985665010249 hypothetical protein; Provisional; Region: PRK06922 985665010250 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 985665010251 S-adenosylmethionine binding site [chemical binding]; other site 985665010252 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 985665010253 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 985665010254 dimer interface [polypeptide binding]; other site 985665010255 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985665010256 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 985665010257 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 985665010258 dimer interface [polypeptide binding]; other site 985665010259 putative radical transfer pathway; other site 985665010260 diiron center [ion binding]; other site 985665010261 tyrosyl radical; other site 985665010262 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 985665010263 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 985665010264 Class I ribonucleotide reductase; Region: RNR_I; cd01679 985665010265 active site 985665010266 dimer interface [polypeptide binding]; other site 985665010267 catalytic residues [active] 985665010268 effector binding site; other site 985665010269 R2 peptide binding site; other site 985665010270 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 985665010271 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985665010272 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 985665010273 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665010274 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665010275 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665010276 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665010277 DNA binding site [nucleotide binding] 985665010278 domain linker motif; other site 985665010279 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 985665010280 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 985665010281 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 985665010282 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 985665010283 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665010284 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665010285 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985665010286 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 985665010287 nucleotide binding site [chemical binding]; other site 985665010288 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665010289 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665010290 putative substrate translocation pore; other site 985665010291 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665010292 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665010293 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665010294 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 985665010295 dimer interface [polypeptide binding]; other site 985665010296 conserved gate region; other site 985665010297 putative PBP binding loops; other site 985665010298 ABC-ATPase subunit interface; other site 985665010299 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665010300 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 985665010301 dimer interface [polypeptide binding]; other site 985665010302 conserved gate region; other site 985665010303 ABC-ATPase subunit interface; other site 985665010304 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 985665010305 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 985665010306 DNA interaction; other site 985665010307 Metal-binding active site; metal-binding site 985665010308 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 985665010309 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 985665010310 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 985665010311 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665010312 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 985665010313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665010314 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665010315 putative substrate translocation pore; other site 985665010316 Predicted membrane protein [Function unknown]; Region: COG4129 985665010317 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 985665010318 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 985665010319 Part of AAA domain; Region: AAA_19; pfam13245 985665010320 Family description; Region: UvrD_C_2; pfam13538 985665010321 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 985665010322 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 985665010323 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 985665010324 active site 985665010325 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 985665010326 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665010327 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665010328 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665010329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665010330 putative alpha-glucosidase; Provisional; Region: PRK10658 985665010331 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 985665010332 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 985665010333 active site 985665010334 homotrimer interface [polypeptide binding]; other site 985665010335 catalytic site [active] 985665010336 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 985665010337 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 985665010338 Beta-lactamase; Region: Beta-lactamase; pfam00144 985665010339 CHASE3 domain; Region: CHASE3; cl05000 985665010340 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 985665010341 dimerization interface [polypeptide binding]; other site 985665010342 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665010343 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665010344 dimer interface [polypeptide binding]; other site 985665010345 putative CheW interface [polypeptide binding]; other site 985665010346 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665010347 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665010348 putative substrate translocation pore; other site 985665010349 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665010350 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665010351 putative substrate translocation pore; other site 985665010352 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665010353 MarR family; Region: MarR; pfam01047 985665010354 MarR family; Region: MarR_2; cl17246 985665010355 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 985665010356 active site 985665010357 intersubunit interactions; other site 985665010358 catalytic residue [active] 985665010359 HTH domain; Region: HTH_11; pfam08279 985665010360 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 985665010361 FOG: CBS domain [General function prediction only]; Region: COG0517 985665010362 TraX protein; Region: TraX; pfam05857 985665010363 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 985665010364 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665010365 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 985665010366 acyl-activating enzyme (AAE) consensus motif; other site 985665010367 AMP binding site [chemical binding]; other site 985665010368 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665010369 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 985665010370 thioester reductase domain; Region: Thioester-redct; TIGR01746 985665010371 putative NAD(P) binding site [chemical binding]; other site 985665010372 active site 985665010373 putative substrate binding site [chemical binding]; other site 985665010374 HAMP domain; Region: HAMP; pfam00672 985665010375 dimerization interface [polypeptide binding]; other site 985665010376 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665010377 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665010378 dimer interface [polypeptide binding]; other site 985665010379 putative CheW interface [polypeptide binding]; other site 985665010380 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665010381 Coenzyme A binding pocket [chemical binding]; other site 985665010382 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 985665010383 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985665010384 active site 985665010385 dimer interface [polypeptide binding]; other site 985665010386 VanZ like family; Region: VanZ; cl01971 985665010387 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665010388 MarR family; Region: MarR; pfam01047 985665010389 MarR family; Region: MarR_2; cl17246 985665010390 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665010391 ATP binding site [chemical binding]; other site 985665010392 Mg2+ binding site [ion binding]; other site 985665010393 G-X-G motif; other site 985665010394 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665010395 putative substrate translocation pore; other site 985665010396 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665010397 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 985665010398 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665010399 Coenzyme A binding pocket [chemical binding]; other site 985665010400 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 985665010401 active site 985665010402 catalytic triad [active] 985665010403 oxyanion hole [active] 985665010404 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665010405 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665010406 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 985665010407 Protein export membrane protein; Region: SecD_SecF; cl14618 985665010408 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 985665010409 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 985665010410 HlyD family secretion protein; Region: HlyD_3; pfam13437 985665010411 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 985665010412 binding surface 985665010413 TPR motif; other site 985665010414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 985665010415 Transposase; Region: HTH_Tnp_1; pfam01527 985665010416 Integrase core domain; Region: rve; pfam00665 985665010417 DDE domain; Region: DDE_Tnp_IS240; pfam13610 985665010418 Integrase core domain; Region: rve_3; pfam13683 985665010419 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665010420 BRO family, N-terminal domain; Region: Bro-N; pfam02498 985665010421 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985665010422 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 985665010423 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 985665010424 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 985665010425 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 985665010426 active site 985665010427 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665010428 Holin family; Region: Phage_holin_4; pfam05105 985665010429 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 985665010430 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 985665010431 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985665010432 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 985665010433 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 985665010434 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 985665010435 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 985665010436 Transposase, Mutator family; Region: Transposase_mut; pfam00872 985665010437 MULE transposase domain; Region: MULE; pfam10551 985665010438 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 985665010439 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 985665010440 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985665010441 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 985665010442 putative active site [active] 985665010443 putative FMN binding site [chemical binding]; other site 985665010444 putative substrate binding site [chemical binding]; other site 985665010445 putative catalytic residue [active] 985665010446 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 985665010447 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 985665010448 DNA binding residues [nucleotide binding] 985665010449 putative dimer interface [polypeptide binding]; other site 985665010450 Uncharacterized proteins similar to Bacillus subtilis YncM; Region: YncM_like; cd13427 985665010451 putative binding site; other site 985665010452 putative dimer interface [polypeptide binding]; other site 985665010453 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665010454 maltose O-acetyltransferase; Provisional; Region: PRK10092 985665010455 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 985665010456 active site 985665010457 substrate binding site [chemical binding]; other site 985665010458 trimer interface [polypeptide binding]; other site 985665010459 CoA binding site [chemical binding]; other site 985665010460 PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology 2) domain. It consists of an eight stranded beta-barrel. The domain can be found in various domain architectures, in case of lipoxygenases, alpha toxin, lipases and...; Region: PLAT; cl00011 985665010461 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665010462 Bacterial SH3 domain homologues; Region: SH3b; smart00287 985665010463 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 985665010464 NlpC/P60 family; Region: NLPC_P60; pfam00877 985665010465 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 985665010466 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 985665010467 lactaldehyde reductase; Region: lactal_redase; TIGR02638 985665010468 dimer interface [polypeptide binding]; other site 985665010469 active site 985665010470 metal binding site [ion binding]; metal-binding site 985665010471 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665010472 MarR family; Region: MarR_2; pfam12802 985665010473 MarR family; Region: MarR_2; cl17246 985665010474 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 985665010475 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985665010476 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 985665010477 EDD domain protein, DegV family; Region: DegV; TIGR00762 985665010478 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 985665010479 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665010480 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665010481 putative substrate translocation pore; other site 985665010482 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 985665010483 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 985665010484 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 985665010485 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 985665010486 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665010487 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665010488 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665010489 Amino acid permease; Region: AA_permease_2; pfam13520 985665010490 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 985665010491 Accessory gene regulator B; Region: AgrB; pfam04647 985665010492 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 985665010493 S-adenosylmethionine binding site [chemical binding]; other site 985665010494 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 985665010495 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 985665010496 active site 985665010497 (T/H)XGH motif; other site 985665010498 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 985665010499 Nucleoside recognition; Region: Gate; pfam07670 985665010500 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 985665010501 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 985665010502 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 985665010503 hypothetical protein; Provisional; Region: PRK13670 985665010504 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 985665010505 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 985665010506 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 985665010507 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 985665010508 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; cd03440 985665010509 active site 2 [active] 985665010510 active site 1 [active] 985665010511 putative phosphate acyltransferase; Provisional; Region: PRK05331 985665010512 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 985665010513 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 985665010514 dimer interface [polypeptide binding]; other site 985665010515 active site 985665010516 CoA binding pocket [chemical binding]; other site 985665010517 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 985665010518 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 985665010519 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 985665010520 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 985665010521 NAD(P) binding site [chemical binding]; other site 985665010522 homotetramer interface [polypeptide binding]; other site 985665010523 homodimer interface [polypeptide binding]; other site 985665010524 active site 985665010525 acyl carrier protein; Provisional; Region: acpP; PRK00982 985665010526 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 985665010527 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 985665010528 dimer interface [polypeptide binding]; other site 985665010529 active site 985665010530 ribonuclease III; Reviewed; Region: rnc; PRK00102 985665010531 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 985665010532 dimerization interface [polypeptide binding]; other site 985665010533 active site 985665010534 metal binding site [ion binding]; metal-binding site 985665010535 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 985665010536 dsRNA binding site [nucleotide binding]; other site 985665010537 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 985665010538 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 985665010539 Walker A/P-loop; other site 985665010540 ATP binding site [chemical binding]; other site 985665010541 Q-loop/lid; other site 985665010542 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 985665010543 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 985665010544 ABC transporter signature motif; other site 985665010545 Walker B; other site 985665010546 D-loop; other site 985665010547 H-loop/switch region; other site 985665010548 potential frameshift: common BLAST hit: gi|308068623|ref|YP_003870228.1| cell division protein ftsY-like protein 985665010549 Haemolysin-III related; Region: HlyIII; cl03831 985665010550 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 985665010551 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 985665010552 putative DNA-binding protein; Validated; Region: PRK00118 985665010553 signal recognition particle protein; Provisional; Region: PRK10867 985665010554 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 985665010555 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 985665010556 P loop; other site 985665010557 GTP binding site [chemical binding]; other site 985665010558 Signal peptide binding domain; Region: SRP_SPB; pfam02978 985665010559 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 985665010560 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 985665010561 hypothetical protein; Provisional; Region: PRK00468 985665010562 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 985665010563 RimM N-terminal domain; Region: RimM; pfam01782 985665010564 PRC-barrel domain; Region: PRC; pfam05239 985665010565 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 985665010566 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 985665010567 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 985665010568 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 985665010569 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 985665010570 Catalytic site [active] 985665010571 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 985665010572 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 985665010573 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 985665010574 GTP/Mg2+ binding site [chemical binding]; other site 985665010575 G4 box; other site 985665010576 G5 box; other site 985665010577 G1 box; other site 985665010578 Switch I region; other site 985665010579 G2 box; other site 985665010580 G3 box; other site 985665010581 Switch II region; other site 985665010582 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 985665010583 RNA/DNA hybrid binding site [nucleotide binding]; other site 985665010584 active site 985665010585 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 985665010586 hypothetical protein; Reviewed; Region: PRK12497 985665010587 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 985665010588 putative FMN binding site [chemical binding]; other site 985665010589 Mg chelatase-related protein; Region: TIGR00368 985665010590 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 985665010591 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 985665010592 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 985665010593 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 985665010594 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665010595 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 985665010596 putative DNA binding site [nucleotide binding]; other site 985665010597 putative Zn2+ binding site [ion binding]; other site 985665010598 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 985665010599 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 985665010600 CoA-ligase; Region: Ligase_CoA; pfam00549 985665010601 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 985665010602 CoA binding domain; Region: CoA_binding; pfam02629 985665010603 CoA-ligase; Region: Ligase_CoA; pfam00549 985665010604 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 985665010605 DNA protecting protein DprA; Region: dprA; TIGR00732 985665010606 DNA topoisomerase I; Validated; Region: PRK05582 985665010607 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 985665010608 active site 985665010609 interdomain interaction site; other site 985665010610 putative metal-binding site [ion binding]; other site 985665010611 nucleotide binding site [chemical binding]; other site 985665010612 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 985665010613 domain I; other site 985665010614 DNA binding groove [nucleotide binding] 985665010615 phosphate binding site [ion binding]; other site 985665010616 domain II; other site 985665010617 domain III; other site 985665010618 nucleotide binding site [chemical binding]; other site 985665010619 catalytic site [active] 985665010620 domain IV; other site 985665010621 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 985665010622 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 985665010623 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 985665010624 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 985665010625 Glucose inhibited division protein A; Region: GIDA; pfam01134 985665010626 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 985665010627 active site 985665010628 HslU subunit interaction site [polypeptide binding]; other site 985665010629 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 985665010630 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 985665010631 Walker A motif; other site 985665010632 ATP binding site [chemical binding]; other site 985665010633 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 985665010634 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 985665010635 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 985665010636 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 985665010637 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 985665010638 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 985665010639 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 985665010640 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 985665010641 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 985665010642 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 985665010643 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 985665010644 FliG C-terminal domain; Region: FliG_C; pfam01706 985665010645 Flagellar assembly protein FliH; Region: FliH; pfam02108 985665010646 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07721 985665010647 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 985665010648 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 985665010649 Walker A motif/ATP binding site; other site 985665010650 Walker B motif; other site 985665010651 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 985665010652 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 985665010653 Uncharacterized conserved protein [Function unknown]; Region: COG3334 985665010654 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 985665010655 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 985665010656 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 985665010657 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 985665010658 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 985665010659 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 985665010660 Flagellar protein (FlbD); Region: FlbD; pfam06289 985665010661 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 985665010662 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 985665010663 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 985665010664 flagellar motor switch protein; Validated; Region: PRK08119 985665010665 CheC-like family; Region: CheC; pfam04509 985665010666 flagellar motor switch protein FliN; Region: fliN; TIGR02480 985665010667 Response regulator receiver domain; Region: Response_reg; pfam00072 985665010668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665010669 active site 985665010670 phosphorylation site [posttranslational modification] 985665010671 intermolecular recognition site; other site 985665010672 dimerization interface [polypeptide binding]; other site 985665010673 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 985665010674 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 985665010675 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 985665010676 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 985665010677 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 985665010678 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 985665010679 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 985665010680 FHIPEP family; Region: FHIPEP; pfam00771 985665010681 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 985665010682 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 985665010683 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 985665010684 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 985665010685 Response regulator receiver domain; Region: Response_reg; pfam00072 985665010686 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665010687 active site 985665010688 phosphorylation site [posttranslational modification] 985665010689 intermolecular recognition site; other site 985665010690 dimerization interface [polypeptide binding]; other site 985665010691 CheB methylesterase; Region: CheB_methylest; pfam01339 985665010692 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 985665010693 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 985665010694 putative binding surface; other site 985665010695 active site 985665010696 P2 response regulator binding domain; Region: P2; pfam07194 985665010697 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 985665010698 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665010699 ATP binding site [chemical binding]; other site 985665010700 Mg2+ binding site [ion binding]; other site 985665010701 G-X-G motif; other site 985665010702 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 985665010703 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 985665010704 putative CheA interaction surface; other site 985665010705 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 985665010706 CheC-like family; Region: CheC; pfam04509 985665010707 CheC-like family; Region: CheC; pfam04509 985665010708 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 985665010709 RNA polymerase sigma factor SigD; Validated; Region: PRK07670 985665010710 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665010711 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 985665010712 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 985665010713 DNA binding residues [nucleotide binding] 985665010714 Protein of unknown function (DUF342); Region: DUF342; pfam03961 985665010715 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 985665010716 YceG-like family; Region: YceG; pfam02618 985665010717 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 985665010718 rRNA interaction site [nucleotide binding]; other site 985665010719 S8 interaction site; other site 985665010720 putative laminin-1 binding site; other site 985665010721 elongation factor Ts; Reviewed; Region: tsf; PRK12332 985665010722 UBA/TS-N domain; Region: UBA; pfam00627 985665010723 Elongation factor TS; Region: EF_TS; pfam00889 985665010724 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 985665010725 putative nucleotide binding site [chemical binding]; other site 985665010726 uridine monophosphate binding site [chemical binding]; other site 985665010727 homohexameric interface [polypeptide binding]; other site 985665010728 ribosome recycling factor; Reviewed; Region: frr; PRK00083 985665010729 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 985665010730 hinge region; other site 985665010731 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 985665010732 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 985665010733 catalytic residue [active] 985665010734 putative FPP diphosphate binding site; other site 985665010735 putative FPP binding hydrophobic cleft; other site 985665010736 dimer interface [polypeptide binding]; other site 985665010737 putative IPP diphosphate binding site; other site 985665010738 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 985665010739 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 985665010740 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 985665010741 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 985665010742 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 985665010743 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 985665010744 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 985665010745 RIP metalloprotease RseP; Region: TIGR00054 985665010746 active site 985665010747 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; cl10020 985665010748 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 985665010749 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 985665010750 putative substrate binding region [chemical binding]; other site 985665010751 prolyl-tRNA synthetase; Provisional; Region: PRK08661 985665010752 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_arch_euk; cd00778 985665010753 dimer interface [polypeptide binding]; other site 985665010754 motif 1; other site 985665010755 active site 985665010756 motif 2; other site 985665010757 motif 3; other site 985665010758 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 985665010759 anticodon binding site; other site 985665010760 zinc-binding site [ion binding]; other site 985665010761 DNA polymerase III PolC; Validated; Region: polC; PRK00448 985665010762 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 985665010763 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 985665010764 generic binding surface II; other site 985665010765 generic binding surface I; other site 985665010766 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 985665010767 active site 985665010768 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 985665010769 active site 985665010770 catalytic site [active] 985665010771 substrate binding site [chemical binding]; other site 985665010772 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 985665010773 ribosome maturation protein RimP; Reviewed; Region: PRK00092 985665010774 Sm and related proteins; Region: Sm_like; cl00259 985665010775 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 985665010776 putative oligomer interface [polypeptide binding]; other site 985665010777 putative RNA binding site [nucleotide binding]; other site 985665010778 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 985665010779 NusA N-terminal domain; Region: NusA_N; pfam08529 985665010780 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 985665010781 RNA binding site [nucleotide binding]; other site 985665010782 homodimer interface [polypeptide binding]; other site 985665010783 NusA-like KH domain; Region: KH_5; pfam13184 985665010784 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 985665010785 G-X-X-G motif; other site 985665010786 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 985665010787 putative RNA binding cleft [nucleotide binding]; other site 985665010788 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 985665010789 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 985665010790 translation initiation factor IF-2; Region: IF-2; TIGR00487 985665010791 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 985665010792 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 985665010793 G1 box; other site 985665010794 putative GEF interaction site [polypeptide binding]; other site 985665010795 GTP/Mg2+ binding site [chemical binding]; other site 985665010796 Switch I region; other site 985665010797 G2 box; other site 985665010798 G3 box; other site 985665010799 Switch II region; other site 985665010800 G4 box; other site 985665010801 G5 box; other site 985665010802 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 985665010803 Translation-initiation factor 2; Region: IF-2; pfam11987 985665010804 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 985665010805 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 985665010806 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 985665010807 DHH family; Region: DHH; pfam01368 985665010808 DHHA1 domain; Region: DHHA1; pfam02272 985665010809 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 985665010810 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 985665010811 RNA binding site [nucleotide binding]; other site 985665010812 active site 985665010813 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 985665010814 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 985665010815 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 985665010816 active site 985665010817 Riboflavin kinase; Region: Flavokinase; pfam01687 985665010818 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 985665010819 16S/18S rRNA binding site [nucleotide binding]; other site 985665010820 S13e-L30e interaction site [polypeptide binding]; other site 985665010821 25S rRNA binding site [nucleotide binding]; other site 985665010822 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 985665010823 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 985665010824 RNase E interface [polypeptide binding]; other site 985665010825 trimer interface [polypeptide binding]; other site 985665010826 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 985665010827 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 985665010828 RNase E interface [polypeptide binding]; other site 985665010829 trimer interface [polypeptide binding]; other site 985665010830 active site 985665010831 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 985665010832 putative nucleic acid binding region [nucleotide binding]; other site 985665010833 G-X-X-G motif; other site 985665010834 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 985665010835 RNA binding site [nucleotide binding]; other site 985665010836 domain interface; other site 985665010837 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 985665010838 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 985665010839 NodB motif; other site 985665010840 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 985665010841 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 985665010842 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 985665010843 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 985665010844 trimer interface [polypeptide binding]; other site 985665010845 active site 985665010846 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 985665010847 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 985665010848 NAD binding site [chemical binding]; other site 985665010849 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 985665010850 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 985665010851 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 985665010852 aspartate kinase I; Reviewed; Region: PRK08210 985665010853 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 985665010854 nucleotide binding site [chemical binding]; other site 985665010855 substrate binding site [chemical binding]; other site 985665010856 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 985665010857 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 985665010858 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 985665010859 dihydrodipicolinate synthase; Region: dapA; TIGR00674 985665010860 dimer interface [polypeptide binding]; other site 985665010861 active site 985665010862 catalytic residue [active] 985665010863 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 985665010864 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 985665010865 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 985665010866 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 985665010867 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 985665010868 active site 985665010869 YlzJ-like protein; Region: YlzJ; pfam14035 985665010870 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 985665010871 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 985665010872 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 985665010873 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 985665010874 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 985665010875 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 985665010876 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 985665010877 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 985665010878 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 985665010879 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 985665010880 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 985665010881 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 985665010882 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 985665010883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665010884 NAD(P) binding site [chemical binding]; other site 985665010885 active site 985665010886 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 985665010887 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 985665010888 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 985665010889 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 985665010890 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 985665010891 non-specific DNA binding site [nucleotide binding]; other site 985665010892 salt bridge; other site 985665010893 sequence-specific DNA binding site [nucleotide binding]; other site 985665010894 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 985665010895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 985665010896 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 985665010897 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 985665010898 competence damage-inducible protein A; Provisional; Region: PRK00549 985665010899 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 985665010900 putative MPT binding site; other site 985665010901 Competence-damaged protein; Region: CinA; pfam02464 985665010902 recombinase A; Provisional; Region: recA; PRK09354 985665010903 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 985665010904 hexamer interface [polypeptide binding]; other site 985665010905 Walker A motif; other site 985665010906 ATP binding site [chemical binding]; other site 985665010907 Walker B motif; other site 985665010908 RecX family; Region: RecX; cl00936 985665010909 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 985665010910 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 985665010911 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665010912 Zn2+ binding site [ion binding]; other site 985665010913 Mg2+ binding site [ion binding]; other site 985665010914 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 985665010915 putative active site [active] 985665010916 metal binding site [ion binding]; metal-binding site 985665010917 homodimer binding site [polypeptide binding]; other site 985665010918 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 985665010919 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 985665010920 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 985665010921 active site 985665010922 dimer interface [polypeptide binding]; other site 985665010923 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 985665010924 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 985665010925 Propanediol utilisation protein PduL; Region: PduL; pfam06130 985665010926 Propanediol utilisation protein PduL; Region: PduL; pfam06130 985665010927 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 985665010928 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 985665010929 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 985665010930 FeS/SAM binding site; other site 985665010931 Protein of unknown function (DUF964); Region: DUF964; cl01483 985665010932 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 985665010933 CoenzymeA binding site [chemical binding]; other site 985665010934 subunit interaction site [polypeptide binding]; other site 985665010935 PHB binding site; other site 985665010936 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 985665010937 nudix motif; other site 985665010938 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 985665010939 Isochorismatase family; Region: Isochorismatase; pfam00857 985665010940 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 985665010941 catalytic triad [active] 985665010942 conserved cis-peptide bond; other site 985665010943 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 985665010944 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 985665010945 active site 985665010946 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 985665010947 MPT binding site; other site 985665010948 trimer interface [polypeptide binding]; other site 985665010949 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 985665010950 dimerization interface [polypeptide binding]; other site 985665010951 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 985665010952 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 985665010953 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 985665010954 active site 985665010955 HIGH motif; other site 985665010956 KMSK motif region; other site 985665010957 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 985665010958 tRNA binding surface [nucleotide binding]; other site 985665010959 anticodon binding site; other site 985665010960 S-layer homology domain; Region: SLH; pfam00395 985665010961 PrcB C-terminal; Region: PrcB_C; pfam14343 985665010962 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665010963 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665010964 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 985665010965 Walker A/P-loop; other site 985665010966 ATP binding site [chemical binding]; other site 985665010967 Q-loop/lid; other site 985665010968 ABC transporter signature motif; other site 985665010969 Walker B; other site 985665010970 D-loop; other site 985665010971 H-loop/switch region; other site 985665010972 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665010973 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 985665010974 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665010975 Walker A/P-loop; other site 985665010976 ATP binding site [chemical binding]; other site 985665010977 Q-loop/lid; other site 985665010978 ABC transporter signature motif; other site 985665010979 Walker B; other site 985665010980 D-loop; other site 985665010981 H-loop/switch region; other site 985665010982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 985665010983 Predicted membrane protein [Function unknown]; Region: COG2707 985665010984 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 985665010985 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 985665010986 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665010987 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 985665010988 putative DNA binding site [nucleotide binding]; other site 985665010989 dimerization interface [polypeptide binding]; other site 985665010990 putative Zn2+ binding site [ion binding]; other site 985665010991 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 985665010992 GTPase RsgA; Reviewed; Region: PRK01889 985665010993 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 985665010994 RNA binding site [nucleotide binding]; other site 985665010995 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 985665010996 GTPase/Zn-binding domain interface [polypeptide binding]; other site 985665010997 GTP/Mg2+ binding site [chemical binding]; other site 985665010998 G4 box; other site 985665010999 G5 box; other site 985665011000 G1 box; other site 985665011001 Switch I region; other site 985665011002 G2 box; other site 985665011003 G3 box; other site 985665011004 Switch II region; other site 985665011005 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 985665011006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 985665011007 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 985665011008 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 985665011009 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 985665011010 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 985665011011 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 985665011012 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 985665011013 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 985665011014 metal ion-dependent adhesion site (MIDAS); other site 985665011015 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 985665011016 active site 985665011017 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 985665011018 classical (c) SDRs; Region: SDR_c; cd05233 985665011019 NAD(P) binding site [chemical binding]; other site 985665011020 active site 985665011021 SEC-C motif; Region: SEC-C; pfam02810 985665011022 Suppression of tumorigenicity 7; Region: ST7; cd11557 985665011023 Phosphotransferase enzyme family; Region: APH; pfam01636 985665011024 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 985665011025 active site 985665011026 substrate binding site [chemical binding]; other site 985665011027 ATP binding site [chemical binding]; other site 985665011028 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 985665011029 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 985665011030 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 985665011031 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 985665011032 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09651 985665011033 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 985665011034 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 985665011035 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 985665011036 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 985665011037 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 985665011038 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 985665011039 substrate binding site [chemical binding]; other site 985665011040 active site 985665011041 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 985665011042 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 985665011043 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 985665011044 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 985665011045 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 985665011046 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 985665011047 CRISPR type III-B/RAMP module RAMP protein Cmr4; Region: cas_RAMP_Cmr4; TIGR02580 985665011048 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cl01317 985665011049 CRISPR system related protein, RAMP superfamily [Defense mechanisms]; Region: COG1604 985665011050 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 985665011051 salt bridge; other site 985665011052 non-specific DNA binding site [nucleotide binding]; other site 985665011053 sequence-specific DNA binding site [nucleotide binding]; other site 985665011054 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 985665011055 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 985665011056 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 985665011057 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 985665011058 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 985665011059 Beta-lactamase; Region: Beta-lactamase; pfam00144 985665011060 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665011061 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 985665011062 dimerization interface [polypeptide binding]; other site 985665011063 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 985665011064 dimer interface [polypeptide binding]; other site 985665011065 phosphorylation site [posttranslational modification] 985665011066 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665011067 ATP binding site [chemical binding]; other site 985665011068 Mg2+ binding site [ion binding]; other site 985665011069 G-X-G motif; other site 985665011070 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665011071 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665011072 active site 985665011073 phosphorylation site [posttranslational modification] 985665011074 intermolecular recognition site; other site 985665011075 dimerization interface [polypeptide binding]; other site 985665011076 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 985665011077 DNA binding site [nucleotide binding] 985665011078 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 985665011079 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 985665011080 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 985665011081 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 985665011082 potential frameshift: common BLAST hit: gi|310641700|ref|YP_003946458.1| glutamyl-q tRNA(asp) synthetase 985665011083 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 985665011084 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 985665011085 ligand binding site [chemical binding]; other site 985665011086 flexible hinge region; other site 985665011087 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 985665011088 non-specific DNA interactions [nucleotide binding]; other site 985665011089 DNA binding site [nucleotide binding] 985665011090 sequence specific DNA binding site [nucleotide binding]; other site 985665011091 putative cAMP binding site [chemical binding]; other site 985665011092 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 985665011093 active site 985665011094 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665011095 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665011096 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 985665011097 dimer interface [polypeptide binding]; other site 985665011098 conserved gate region; other site 985665011099 putative PBP binding loops; other site 985665011100 ABC-ATPase subunit interface; other site 985665011101 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665011102 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 985665011103 dimer interface [polypeptide binding]; other site 985665011104 conserved gate region; other site 985665011105 putative PBP binding loops; other site 985665011106 ABC-ATPase subunit interface; other site 985665011107 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 985665011108 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 985665011109 ATP binding site [chemical binding]; other site 985665011110 putative Mg++ binding site [ion binding]; other site 985665011111 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 985665011112 nucleotide binding region [chemical binding]; other site 985665011113 ATP-binding site [chemical binding]; other site 985665011114 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 985665011115 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 985665011116 Acyltransferase family; Region: Acyl_transf_3; pfam01757 985665011117 Replication terminator protein; Region: RTP; pfam02334 985665011118 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665011119 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665011120 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 985665011121 DivIVA protein; Region: DivIVA; pfam05103 985665011122 DivIVA domain; Region: DivI1A_domain; TIGR03544 985665011123 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 985665011124 Predicted transcriptional regulator [Transcription]; Region: COG1959 985665011125 Transcriptional regulator; Region: Rrf2; pfam02082 985665011126 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 985665011127 active site 985665011128 metal binding site [ion binding]; metal-binding site 985665011129 homotetramer interface [polypeptide binding]; other site 985665011130 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 985665011131 dimer interface [polypeptide binding]; other site 985665011132 [2Fe-2S] cluster binding site [ion binding]; other site 985665011133 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 985665011134 dimer interface [polypeptide binding]; other site 985665011135 FMN binding site [chemical binding]; other site 985665011136 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 985665011137 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665011138 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985665011139 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 985665011140 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 985665011141 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 985665011142 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 985665011143 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 985665011144 Uncharacterized conserved protein [Function unknown]; Region: COG2135 985665011145 benzoate transport; Region: 2A0115; TIGR00895 985665011146 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665011147 putative substrate translocation pore; other site 985665011148 OsmC-like protein; Region: OsmC; cl00767 985665011149 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 985665011150 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 985665011151 glutamate racemase; Provisional; Region: PRK00865 985665011152 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 985665011153 potential frameshift: common BLAST hit: gi|310641732|ref|YP_003946490.1| metallothiol transferase fosb 985665011154 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 985665011155 active site 985665011156 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 985665011157 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 985665011158 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 985665011159 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 985665011160 active site 985665011161 catalytic residues [active] 985665011162 TIR domain; Region: TIR_2; pfam13676 985665011163 Domain of unknown function (DUF4071); Region: DUF4071; pfam13281 985665011164 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 985665011165 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 985665011166 acetolactate synthase; Reviewed; Region: PRK08617 985665011167 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 985665011168 PYR/PP interface [polypeptide binding]; other site 985665011169 dimer interface [polypeptide binding]; other site 985665011170 TPP binding site [chemical binding]; other site 985665011171 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 985665011172 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 985665011173 TPP-binding site [chemical binding]; other site 985665011174 dimer interface [polypeptide binding]; other site 985665011175 Glucuronate isomerase; Region: UxaC; pfam02614 985665011176 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 985665011177 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 985665011178 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665011179 putative substrate translocation pore; other site 985665011180 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665011181 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665011182 DNA binding site [nucleotide binding] 985665011183 domain linker motif; other site 985665011184 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 985665011185 dimerization interface [polypeptide binding]; other site 985665011186 ligand binding site [chemical binding]; other site 985665011187 pyruvate dehydrogenase; Provisional; Region: PRK09124 985665011188 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 985665011189 PYR/PP interface [polypeptide binding]; other site 985665011190 tetramer interface [polypeptide binding]; other site 985665011191 dimer interface [polypeptide binding]; other site 985665011192 TPP binding site [chemical binding]; other site 985665011193 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 985665011194 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 985665011195 TPP-binding site [chemical binding]; other site 985665011196 altronate oxidoreductase; Provisional; Region: PRK03643 985665011197 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 985665011198 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 985665011199 galactarate dehydratase; Region: galactar-dH20; TIGR03248 985665011200 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 985665011201 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 985665011202 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 985665011203 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665011204 Coenzyme A binding pocket [chemical binding]; other site 985665011205 Protein of unknown function (DUF3891); Region: DUF3891; pfam13030 985665011206 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 985665011207 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 985665011208 ligand binding site; other site 985665011209 oligomer interface; other site 985665011210 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 985665011211 dimer interface [polypeptide binding]; other site 985665011212 N-terminal domain interface [polypeptide binding]; other site 985665011213 sulfate 1 binding site; other site 985665011214 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 985665011215 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 985665011216 ligand binding site; other site 985665011217 oligomer interface; other site 985665011218 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 985665011219 dimer interface [polypeptide binding]; other site 985665011220 N-terminal domain interface [polypeptide binding]; other site 985665011221 sulfate 1 binding site; other site 985665011222 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 985665011223 homodimer interface [polypeptide binding]; other site 985665011224 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 985665011225 active site pocket [active] 985665011226 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 985665011227 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 985665011228 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 985665011229 Predicted membrane protein [Function unknown]; Region: COG1511 985665011230 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 985665011231 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 985665011232 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 985665011233 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665011234 active site 985665011235 catalytic tetrad [active] 985665011236 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 985665011237 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 985665011238 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 985665011239 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665011240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665011241 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 985665011242 dimerization interface [polypeptide binding]; other site 985665011243 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 985665011244 Predicted membrane protein [Function unknown]; Region: COG2323 985665011245 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 985665011246 catalytic residues [active] 985665011247 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 985665011248 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 985665011249 active site 985665011250 non-prolyl cis peptide bond; other site 985665011251 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 985665011252 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985665011253 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665011254 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665011255 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 985665011256 dimerization interface [polypeptide binding]; other site 985665011257 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 985665011258 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 985665011259 substrate binding pocket [chemical binding]; other site 985665011260 membrane-bound complex binding site; other site 985665011261 hinge residues; other site 985665011262 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 985665011263 dimer interface [polypeptide binding]; other site 985665011264 conserved gate region; other site 985665011265 putative PBP binding loops; other site 985665011266 ABC-ATPase subunit interface; other site 985665011267 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 985665011268 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 985665011269 dimer interface [polypeptide binding]; other site 985665011270 conserved gate region; other site 985665011271 putative PBP binding loops; other site 985665011272 ABC-ATPase subunit interface; other site 985665011273 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985665011274 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 985665011275 Walker A/P-loop; other site 985665011276 ATP binding site [chemical binding]; other site 985665011277 Q-loop/lid; other site 985665011278 ABC transporter signature motif; other site 985665011279 Walker B; other site 985665011280 D-loop; other site 985665011281 H-loop/switch region; other site 985665011282 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 985665011283 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 985665011284 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 985665011285 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985665011286 metal binding site [ion binding]; metal-binding site 985665011287 dimer interface [polypeptide binding]; other site 985665011288 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 985665011289 dimerization interface [polypeptide binding]; other site 985665011290 putative DNA binding site [nucleotide binding]; other site 985665011291 putative Zn2+ binding site [ion binding]; other site 985665011292 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985665011293 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; cd00995 985665011294 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665011295 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 985665011296 dimer interface [polypeptide binding]; other site 985665011297 conserved gate region; other site 985665011298 putative PBP binding loops; other site 985665011299 ABC-ATPase subunit interface; other site 985665011300 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 985665011301 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 985665011302 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 985665011303 dimer interface [polypeptide binding]; other site 985665011304 conserved gate region; other site 985665011305 putative PBP binding loops; other site 985665011306 ABC-ATPase subunit interface; other site 985665011307 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 985665011308 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665011309 Walker A/P-loop; other site 985665011310 ATP binding site [chemical binding]; other site 985665011311 Q-loop/lid; other site 985665011312 ABC transporter signature motif; other site 985665011313 Walker B; other site 985665011314 D-loop; other site 985665011315 H-loop/switch region; other site 985665011316 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 985665011317 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 985665011318 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665011319 Walker A/P-loop; other site 985665011320 ATP binding site [chemical binding]; other site 985665011321 Q-loop/lid; other site 985665011322 ABC transporter signature motif; other site 985665011323 Walker B; other site 985665011324 D-loop; other site 985665011325 H-loop/switch region; other site 985665011326 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 985665011327 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 985665011328 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 985665011329 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 985665011330 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665011331 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 985665011332 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 985665011333 G1 box; other site 985665011334 GTP/Mg2+ binding site [chemical binding]; other site 985665011335 G2 box; other site 985665011336 Switch I region; other site 985665011337 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 985665011338 Cation efflux family; Region: Cation_efflux; pfam01545 985665011339 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 985665011340 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 985665011341 RDD family; Region: RDD; pfam06271 985665011342 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 985665011343 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 985665011344 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 985665011345 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 985665011346 dimer interface [polypeptide binding]; other site 985665011347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665011348 catalytic residue [active] 985665011349 cystathionine beta-lyase; Provisional; Region: PRK07671 985665011350 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 985665011351 homodimer interface [polypeptide binding]; other site 985665011352 substrate-cofactor binding pocket; other site 985665011353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665011354 catalytic residue [active] 985665011355 Predicted esterase [General function prediction only]; Region: COG0400 985665011356 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 985665011357 metal ion-dependent adhesion site (MIDAS); other site 985665011358 Tubulin like; Region: Tubulin_2; pfam13809 985665011359 Tubulin like; Region: Tubulin_2; pfam13809 985665011360 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 985665011361 metal ion-dependent adhesion site (MIDAS); other site 985665011362 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985665011363 MarR family; Region: MarR_2; pfam12802 985665011364 potential frameshift: common BLAST hit: gi|308068889|ref|YP_003870494.1| Permease of the major facilitator superfamily 985665011365 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 985665011366 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 985665011367 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 985665011368 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 985665011369 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 985665011370 TIGR03943 family protein; Region: TIGR03943 985665011371 Predicted permeases [General function prediction only]; Region: COG0701 985665011372 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 985665011373 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 985665011374 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 985665011375 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 985665011376 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 985665011377 ABC-ATPase subunit interface; other site 985665011378 dimer interface [polypeptide binding]; other site 985665011379 putative PBP binding regions; other site 985665011380 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 985665011381 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 985665011382 Walker A/P-loop; other site 985665011383 ATP binding site [chemical binding]; other site 985665011384 Q-loop/lid; other site 985665011385 ABC transporter signature motif; other site 985665011386 Walker B; other site 985665011387 D-loop; other site 985665011388 H-loop/switch region; other site 985665011389 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 985665011390 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 985665011391 putative ligand binding residues [chemical binding]; other site 985665011392 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 985665011393 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985665011394 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 985665011395 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 985665011396 ABC-ATPase subunit interface; other site 985665011397 dimer interface [polypeptide binding]; other site 985665011398 putative PBP binding regions; other site 985665011399 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 985665011400 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 985665011401 metal binding site [ion binding]; metal-binding site 985665011402 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 985665011403 Response regulator receiver domain; Region: Response_reg; pfam00072 985665011404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665011405 active site 985665011406 phosphorylation site [posttranslational modification] 985665011407 intermolecular recognition site; other site 985665011408 dimerization interface [polypeptide binding]; other site 985665011409 WYL domain; Region: WYL; cl14852 985665011410 YolD-like protein; Region: YolD; pfam08863 985665011411 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665011412 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665011413 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 985665011414 S-adenosylmethionine binding site [chemical binding]; other site 985665011415 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 985665011416 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 985665011417 trimerization site [polypeptide binding]; other site 985665011418 putative GTP cyclohydrolase; Provisional; Region: PRK13674 985665011419 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 985665011420 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 985665011421 putative transporter; Provisional; Region: PRK10504 985665011422 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665011423 putative substrate translocation pore; other site 985665011424 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 985665011425 IucA / IucC family; Region: IucA_IucC; pfam04183 985665011426 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985665011427 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 985665011428 IucA / IucC family; Region: IucA_IucC; pfam04183 985665011429 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985665011430 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 985665011431 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 985665011432 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 985665011433 dimer interface [polypeptide binding]; other site 985665011434 active site 985665011435 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985665011436 catalytic residues [active] 985665011437 substrate binding site [chemical binding]; other site 985665011438 IucA / IucC family; Region: IucA_IucC; pfam04183 985665011439 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985665011440 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665011441 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665011442 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665011443 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 985665011444 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 985665011445 intersubunit interface [polypeptide binding]; other site 985665011446 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 985665011447 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 985665011448 siderophore binding site; other site 985665011449 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985665011450 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 985665011451 ABC-ATPase subunit interface; other site 985665011452 dimer interface [polypeptide binding]; other site 985665011453 putative PBP binding regions; other site 985665011454 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 985665011455 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 985665011456 ABC-ATPase subunit interface; other site 985665011457 dimer interface [polypeptide binding]; other site 985665011458 putative PBP binding regions; other site 985665011459 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 985665011460 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 985665011461 Walker A/P-loop; other site 985665011462 ATP binding site [chemical binding]; other site 985665011463 Q-loop/lid; other site 985665011464 ABC transporter signature motif; other site 985665011465 Walker B; other site 985665011466 D-loop; other site 985665011467 H-loop/switch region; other site 985665011468 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 985665011469 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 985665011470 active site 985665011471 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 985665011472 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 985665011473 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 985665011474 active site 985665011475 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 985665011476 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 985665011477 active site 985665011478 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 985665011479 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 985665011480 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985665011481 catalytic residue [active] 985665011482 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 985665011483 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 985665011484 putative trimer interface [polypeptide binding]; other site 985665011485 putative CoA binding site [chemical binding]; other site 985665011486 short chain dehydrogenase; Validated; Region: PRK08324 985665011487 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 985665011488 active site 985665011489 intersubunit interface [polypeptide binding]; other site 985665011490 Zn2+ binding site [ion binding]; other site 985665011491 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 985665011492 putative NAD(P) binding site [chemical binding]; other site 985665011493 active site 985665011494 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 985665011495 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 985665011496 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 985665011497 N- and C-terminal domain interface [polypeptide binding]; other site 985665011498 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 985665011499 active site 985665011500 putative catalytic site [active] 985665011501 metal binding site [ion binding]; metal-binding site 985665011502 ATP binding site [chemical binding]; other site 985665011503 carbohydrate binding site [chemical binding]; other site 985665011504 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 985665011505 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 985665011506 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 985665011507 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 985665011508 Cysteine-rich domain; Region: CCG; pfam02754 985665011509 Cysteine-rich domain; Region: CCG; pfam02754 985665011510 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 985665011511 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 985665011512 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 985665011513 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 985665011514 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 985665011515 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665011516 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665011517 DNA binding site [nucleotide binding] 985665011518 domain linker motif; other site 985665011519 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 985665011520 putative dimerization interface [polypeptide binding]; other site 985665011521 putative ligand binding site [chemical binding]; other site 985665011522 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 985665011523 beta-galactosidase; Region: BGL; TIGR03356 985665011524 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 985665011525 EamA-like transporter family; Region: EamA; pfam00892 985665011526 EamA-like transporter family; Region: EamA; pfam00892 985665011527 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985665011528 CAT RNA binding domain; Region: CAT_RBD; smart01061 985665011529 PRD domain; Region: PRD; pfam00874 985665011530 PRD domain; Region: PRD; pfam00874 985665011531 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 985665011532 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 985665011533 active site turn [active] 985665011534 phosphorylation site [posttranslational modification] 985665011535 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665011536 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 985665011537 HPr interaction site; other site 985665011538 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665011539 active site 985665011540 phosphorylation site [posttranslational modification] 985665011541 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 985665011542 beta-galactosidase; Region: BGL; TIGR03356 985665011543 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665011544 G-X-G motif; other site 985665011545 CHRD domain; Region: CHRD; pfam07452 985665011546 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 985665011547 active site 985665011548 catalytic triad [active] 985665011549 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 985665011550 DNA binding site [nucleotide binding] 985665011551 active site 985665011552 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 985665011553 HlyD family secretion protein; Region: HlyD_2; pfam12700 985665011554 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 985665011555 HlyD family secretion protein; Region: HlyD_3; pfam13437 985665011556 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985665011557 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 985665011558 Walker A/P-loop; other site 985665011559 ATP binding site [chemical binding]; other site 985665011560 Q-loop/lid; other site 985665011561 ABC transporter signature motif; other site 985665011562 Walker B; other site 985665011563 D-loop; other site 985665011564 H-loop/switch region; other site 985665011565 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 985665011566 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 985665011567 FtsX-like permease family; Region: FtsX; pfam02687 985665011568 HTH domain; Region: HTH_11; pfam08279 985665011569 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 985665011570 FOG: CBS domain [General function prediction only]; Region: COG0517 985665011571 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 985665011572 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 985665011573 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 985665011574 putative active site [active] 985665011575 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 985665011576 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665011577 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 985665011578 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665011579 Walker A/P-loop; other site 985665011580 ATP binding site [chemical binding]; other site 985665011581 Q-loop/lid; other site 985665011582 ABC transporter signature motif; other site 985665011583 Walker B; other site 985665011584 D-loop; other site 985665011585 H-loop/switch region; other site 985665011586 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665011587 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665011588 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 985665011589 Walker A/P-loop; other site 985665011590 ATP binding site [chemical binding]; other site 985665011591 Q-loop/lid; other site 985665011592 ABC transporter signature motif; other site 985665011593 Walker B; other site 985665011594 D-loop; other site 985665011595 H-loop/switch region; other site 985665011596 Condensation domain; Region: Condensation; pfam00668 985665011597 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 985665011598 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 985665011599 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 985665011600 acyl-activating enzyme (AAE) consensus motif; other site 985665011601 AMP binding site [chemical binding]; other site 985665011602 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665011603 Condensation domain; Region: Condensation; pfam00668 985665011604 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011605 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 985665011606 Condensation domain; Region: Condensation; pfam00668 985665011607 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011608 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 985665011609 acyl-activating enzyme (AAE) consensus motif; other site 985665011610 AMP binding site [chemical binding]; other site 985665011611 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665011612 Condensation domain; Region: Condensation; pfam00668 985665011613 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011614 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 985665011615 Condensation domain; Region: Condensation; pfam00668 985665011616 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011617 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665011618 acyl-activating enzyme (AAE) consensus motif; other site 985665011619 AMP binding site [chemical binding]; other site 985665011620 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665011621 Condensation domain; Region: Condensation; pfam00668 985665011622 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011623 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 985665011624 Condensation domain; Region: Condensation; pfam00668 985665011625 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011626 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665011627 acyl-activating enzyme (AAE) consensus motif; other site 985665011628 AMP binding site [chemical binding]; other site 985665011629 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665011630 Condensation domain; Region: Condensation; pfam00668 985665011631 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011632 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 985665011633 Condensation domain; Region: Condensation; pfam00668 985665011634 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011635 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665011636 acyl-activating enzyme (AAE) consensus motif; other site 985665011637 AMP binding site [chemical binding]; other site 985665011638 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665011639 Condensation domain; Region: Condensation; pfam00668 985665011640 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011641 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 985665011642 Condensation domain; Region: Condensation; pfam00668 985665011643 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011644 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665011645 acyl-activating enzyme (AAE) consensus motif; other site 985665011646 AMP binding site [chemical binding]; other site 985665011647 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665011648 Condensation domain; Region: Condensation; pfam00668 985665011649 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011650 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 985665011651 Condensation domain; Region: Condensation; pfam00668 985665011652 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665011653 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 985665011654 acyl-activating enzyme (AAE) consensus motif; other site 985665011655 AMP binding site [chemical binding]; other site 985665011656 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665011657 Condensation domain; Region: Condensation; pfam00668 985665011658 H+ Antiporter protein; Region: 2A0121; TIGR00900 985665011659 Condensation domain; Region: Condensation; pfam00668 985665011660 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011661 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665011662 acyl-activating enzyme (AAE) consensus motif; other site 985665011663 AMP binding site [chemical binding]; other site 985665011664 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665011665 Condensation domain; Region: Condensation; pfam00668 985665011666 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011667 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 985665011668 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665011669 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 985665011670 acyl-activating enzyme (AAE) consensus motif; other site 985665011671 AMP binding site [chemical binding]; other site 985665011672 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665011673 Condensation domain; Region: Condensation; pfam00668 985665011674 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; cl00947 985665011675 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; cl00947 985665011676 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 985665011677 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 985665011678 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 985665011679 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 985665011680 E3 interaction surface; other site 985665011681 lipoyl attachment site [posttranslational modification]; other site 985665011682 HlyD family secretion protein; Region: HlyD_3; pfam13437 985665011683 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985665011684 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665011685 putative substrate translocation pore; other site 985665011686 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 985665011687 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 985665011688 HlyD family secretion protein; Region: HlyD_3; pfam13437 985665011689 putative membrane fusion protein; Region: TIGR02828 985665011690 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 985665011691 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 985665011692 Sulfatase; Region: Sulfatase; cl17466 985665011693 coproporphyrinogen III oxidase; Validated; Region: PRK08208 985665011694 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 985665011695 FeS/SAM binding site; other site 985665011696 HemN C-terminal domain; Region: HemN_C; pfam06969 985665011697 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 985665011698 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 985665011699 FeS/SAM binding site; other site 985665011700 Protein of unknown function (DUF2653); Region: DUF2653; pfam10850 985665011701 Predicted transcriptional regulators [Transcription]; Region: COG1695 985665011702 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 985665011703 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 985665011704 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 985665011705 active site clefts [active] 985665011706 zinc binding site [ion binding]; other site 985665011707 dimer interface [polypeptide binding]; other site 985665011708 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 985665011709 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 985665011710 active site 985665011711 Zn binding site [ion binding]; other site 985665011712 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 985665011713 NMT1-like family; Region: NMT1_2; pfam13379 985665011714 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 985665011715 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 985665011716 Walker A/P-loop; other site 985665011717 ATP binding site [chemical binding]; other site 985665011718 Q-loop/lid; other site 985665011719 ABC transporter signature motif; other site 985665011720 Walker B; other site 985665011721 D-loop; other site 985665011722 H-loop/switch region; other site 985665011723 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 985665011724 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 985665011725 dimer interface [polypeptide binding]; other site 985665011726 conserved gate region; other site 985665011727 putative PBP binding loops; other site 985665011728 ABC-ATPase subunit interface; other site 985665011729 Predicted membrane protein [Function unknown]; Region: COG4129 985665011730 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 985665011731 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 985665011732 putative transporter; Provisional; Region: PRK11021 985665011733 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665011734 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665011735 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 985665011736 dimerization interface [polypeptide binding]; other site 985665011737 Outer spore coat protein E (CotE); Region: CotE; pfam10628 985665011738 Phage phiEco32-like COOH.NH2 ligase-type 2; Region: COOH-NH2_lig; pfam14395 985665011739 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 985665011740 MutS domain I; Region: MutS_I; pfam01624 985665011741 MutS domain II; Region: MutS_II; pfam05188 985665011742 MutS domain III; Region: MutS_III; pfam05192 985665011743 MutS domain V; Region: MutS_V; pfam00488 985665011744 Walker A/P-loop; other site 985665011745 ATP binding site [chemical binding]; other site 985665011746 Q-loop/lid; other site 985665011747 ABC transporter signature motif; other site 985665011748 Walker B; other site 985665011749 D-loop; other site 985665011750 H-loop/switch region; other site 985665011751 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 985665011752 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665011753 ATP binding site [chemical binding]; other site 985665011754 Mg2+ binding site [ion binding]; other site 985665011755 G-X-G motif; other site 985665011756 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 985665011757 ATP binding site [chemical binding]; other site 985665011758 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 985665011759 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 985665011760 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 985665011761 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 985665011762 bacterial Hfq-like; Region: Hfq; cd01716 985665011763 hexamer interface [polypeptide binding]; other site 985665011764 Sm1 motif; other site 985665011765 RNA binding site [nucleotide binding]; other site 985665011766 Sm2 motif; other site 985665011767 Transglycosylase; Region: Transgly; pfam00912 985665011768 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 985665011769 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 985665011770 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 985665011771 Interdomain contacts; other site 985665011772 Cytokine receptor motif; other site 985665011773 Protein of unknown function (DUF402); Region: DUF402; cl00979 985665011774 Uncharacterized conserved protein [Function unknown]; Region: COG1434 985665011775 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 985665011776 putative active site [active] 985665011777 stage V sporulation protein K; Region: spore_V_K; TIGR02881 985665011778 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 985665011779 Walker A motif; other site 985665011780 ATP binding site [chemical binding]; other site 985665011781 Walker B motif; other site 985665011782 arginine finger; other site 985665011783 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 985665011784 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 985665011785 HflX GTPase family; Region: HflX; cd01878 985665011786 G1 box; other site 985665011787 GTP/Mg2+ binding site [chemical binding]; other site 985665011788 Switch I region; other site 985665011789 G2 box; other site 985665011790 G3 box; other site 985665011791 Switch II region; other site 985665011792 G4 box; other site 985665011793 G5 box; other site 985665011794 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 985665011795 Aluminium resistance protein; Region: Alum_res; pfam06838 985665011796 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 985665011797 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 985665011798 DNA binding residues [nucleotide binding] 985665011799 putative dimer interface [polypeptide binding]; other site 985665011800 glutamine synthetase, type I; Region: GlnA; TIGR00653 985665011801 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 985665011802 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 985665011803 Accessory gene regulator B; Region: AgrB; pfam04647 985665011804 LytTr DNA-binding domain; Region: LytTR; cl04498 985665011805 LexA repressor; Validated; Region: PRK00215 985665011806 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 985665011807 putative DNA binding site [nucleotide binding]; other site 985665011808 putative Zn2+ binding site [ion binding]; other site 985665011809 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 985665011810 Catalytic site [active] 985665011811 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985665011812 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 985665011813 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 985665011814 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 985665011815 motif II; other site 985665011816 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 985665011817 Cupin domain; Region: Cupin_2; pfam07883 985665011818 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 985665011819 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 985665011820 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 985665011821 substrate binding pocket [chemical binding]; other site 985665011822 dimer interface [polypeptide binding]; other site 985665011823 inhibitor binding site; inhibition site 985665011824 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 985665011825 B12 binding site [chemical binding]; other site 985665011826 cobalt ligand [ion binding]; other site 985665011827 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 985665011828 ribonuclease Z; Region: RNase_Z; TIGR02651 985665011829 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 985665011830 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 985665011831 active site 985665011832 motif I; other site 985665011833 motif II; other site 985665011834 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 985665011835 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 985665011836 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 985665011837 DNA binding site [nucleotide binding] 985665011838 catalytic residue [active] 985665011839 H2TH interface [polypeptide binding]; other site 985665011840 putative catalytic residues [active] 985665011841 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 985665011842 AP endonuclease family 2; Region: AP2Ec; smart00518 985665011843 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 985665011844 AP (apurinic/apyrimidinic) site pocket; other site 985665011845 DNA interaction; other site 985665011846 Metal-binding active site; metal-binding site 985665011847 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 985665011848 catalytic residues [active] 985665011849 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 985665011850 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 985665011851 Walker A/P-loop; other site 985665011852 ATP binding site [chemical binding]; other site 985665011853 Q-loop/lid; other site 985665011854 ABC transporter signature motif; other site 985665011855 Walker B; other site 985665011856 D-loop; other site 985665011857 H-loop/switch region; other site 985665011858 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2933 985665011859 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 985665011860 S-adenosylmethionine binding site [chemical binding]; other site 985665011861 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 985665011862 Catalytic domain of Protein Kinases; Region: PKc; cd00180 985665011863 active site 985665011864 ATP binding site [chemical binding]; other site 985665011865 substrate binding site [chemical binding]; other site 985665011866 activation loop (A-loop); other site 985665011867 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 985665011868 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 985665011869 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 985665011870 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 985665011871 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 985665011872 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665011873 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665011874 Walker A/P-loop; other site 985665011875 ATP binding site [chemical binding]; other site 985665011876 Q-loop/lid; other site 985665011877 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665011878 ABC transporter signature motif; other site 985665011879 Walker B; other site 985665011880 D-loop; other site 985665011881 ABC transporter; Region: ABC_tran_2; pfam12848 985665011882 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665011883 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 985665011884 thiamine phosphate binding site [chemical binding]; other site 985665011885 active site 985665011886 pyrophosphate binding site [ion binding]; other site 985665011887 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 985665011888 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 985665011889 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 985665011890 thiS-thiF/thiG interaction site; other site 985665011891 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 985665011892 ThiS interaction site; other site 985665011893 putative active site [active] 985665011894 tetramer interface [polypeptide binding]; other site 985665011895 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 985665011896 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 985665011897 ATP binding site [chemical binding]; other site 985665011898 substrate interface [chemical binding]; other site 985665011899 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665011900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665011901 active site 985665011902 phosphorylation site [posttranslational modification] 985665011903 intermolecular recognition site; other site 985665011904 dimerization interface [polypeptide binding]; other site 985665011905 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 985665011906 DNA binding site [nucleotide binding] 985665011907 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 985665011908 NlpC/P60 family; Region: NLPC_P60; pfam00877 985665011909 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 985665011910 Thiamine pyrophosphokinase; Region: TPK; cd07995 985665011911 active site 985665011912 dimerization interface [polypeptide binding]; other site 985665011913 thiamine binding site [chemical binding]; other site 985665011914 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 985665011915 Low molecular weight phosphatase family; Region: LMWPc; cd00115 985665011916 active site 985665011917 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 985665011918 Putative esterase; Region: Esterase; pfam00756 985665011919 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 985665011920 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 985665011921 TPP-binding site [chemical binding]; other site 985665011922 heterodimer interface [polypeptide binding]; other site 985665011923 tetramer interface [polypeptide binding]; other site 985665011924 phosphorylation loop region [posttranslational modification] 985665011925 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 985665011926 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 985665011927 alpha subunit interface [polypeptide binding]; other site 985665011928 TPP binding site [chemical binding]; other site 985665011929 heterodimer interface [polypeptide binding]; other site 985665011930 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985665011931 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 985665011932 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 985665011933 E3 interaction surface; other site 985665011934 lipoyl attachment site [posttranslational modification]; other site 985665011935 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 985665011936 E3 interaction surface; other site 985665011937 lipoyl attachment site [posttranslational modification]; other site 985665011938 e3 binding domain; Region: E3_binding; pfam02817 985665011939 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 985665011940 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 985665011941 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 985665011942 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665011943 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 985665011944 thymidylate synthase; Reviewed; Region: thyA; PRK01827 985665011945 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 985665011946 dimerization interface [polypeptide binding]; other site 985665011947 active site 985665011948 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 985665011949 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 985665011950 folate binding site [chemical binding]; other site 985665011951 NADP+ binding site [chemical binding]; other site 985665011952 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 985665011953 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665011954 DNA topoisomerase III; Provisional; Region: PRK07726 985665011955 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 985665011956 active site 985665011957 putative interdomain interaction site [polypeptide binding]; other site 985665011958 putative metal-binding site [ion binding]; other site 985665011959 putative nucleotide binding site [chemical binding]; other site 985665011960 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 985665011961 domain I; other site 985665011962 DNA binding groove [nucleotide binding] 985665011963 phosphate binding site [ion binding]; other site 985665011964 domain II; other site 985665011965 domain III; other site 985665011966 nucleotide binding site [chemical binding]; other site 985665011967 catalytic site [active] 985665011968 domain IV; other site 985665011969 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 985665011970 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 985665011971 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665011972 active site 985665011973 catalytic tetrad [active] 985665011974 Condensation domain; Region: Condensation; pfam00668 985665011975 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665011976 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 985665011977 acyl-activating enzyme (AAE) consensus motif; other site 985665011978 potential frameshift: common BLAST hit: gi|308070901|ref|YP_003872506.1| Gramicidin S synthetase II 985665011979 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665011980 AMP binding site [chemical binding]; other site 985665011981 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665011982 thioester reductase domain; Region: Thioester-redct; TIGR01746 985665011983 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 985665011984 putative NAD(P) binding site [chemical binding]; other site 985665011985 active site 985665011986 putative substrate binding site [chemical binding]; other site 985665011987 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 985665011988 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 985665011989 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 985665011990 motif II; other site 985665011991 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665011992 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665011993 putative substrate translocation pore; other site 985665011994 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 985665011995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665011996 Walker A/P-loop; other site 985665011997 ATP binding site [chemical binding]; other site 985665011998 Q-loop/lid; other site 985665011999 ABC transporter signature motif; other site 985665012000 Walker B; other site 985665012001 D-loop; other site 985665012002 H-loop/switch region; other site 985665012003 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665012004 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665012005 active site 985665012006 phosphorylation site [posttranslational modification] 985665012007 intermolecular recognition site; other site 985665012008 dimerization interface [polypeptide binding]; other site 985665012009 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 985665012010 DNA binding site [nucleotide binding] 985665012011 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665012012 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 985665012013 dimerization interface [polypeptide binding]; other site 985665012014 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 985665012015 dimer interface [polypeptide binding]; other site 985665012016 phosphorylation site [posttranslational modification] 985665012017 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665012018 ATP binding site [chemical binding]; other site 985665012019 Mg2+ binding site [ion binding]; other site 985665012020 G-X-G motif; other site 985665012021 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 985665012022 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 985665012023 ligand binding site; other site 985665012024 oligomer interface; other site 985665012025 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 985665012026 N-terminal domain interface [polypeptide binding]; other site 985665012027 sulfate 1 binding site; other site 985665012028 glycogen branching enzyme; Provisional; Region: PRK12313 985665012029 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 985665012030 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 985665012031 active site 985665012032 catalytic site [active] 985665012033 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 985665012034 glycogen synthase; Provisional; Region: glgA; PRK00654 985665012035 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 985665012036 ADP-binding pocket [chemical binding]; other site 985665012037 homodimer interface [polypeptide binding]; other site 985665012038 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 985665012039 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985665012040 metal binding site [ion binding]; metal-binding site 985665012041 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 985665012042 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 985665012043 substrate binding pocket [chemical binding]; other site 985665012044 membrane-bound complex binding site; other site 985665012045 hinge residues; other site 985665012046 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 985665012047 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 985665012048 dimer interface [polypeptide binding]; other site 985665012049 conserved gate region; other site 985665012050 putative PBP binding loops; other site 985665012051 ABC-ATPase subunit interface; other site 985665012052 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985665012053 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 985665012054 Walker A/P-loop; other site 985665012055 ATP binding site [chemical binding]; other site 985665012056 Q-loop/lid; other site 985665012057 ABC transporter signature motif; other site 985665012058 Walker B; other site 985665012059 D-loop; other site 985665012060 H-loop/switch region; other site 985665012061 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 985665012062 3D domain; Region: 3D; cl01439 985665012063 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 985665012064 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 985665012065 NodB motif; other site 985665012066 active site 985665012067 catalytic site [active] 985665012068 metal binding site [ion binding]; metal-binding site 985665012069 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985665012070 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 985665012071 active site 985665012072 FMN binding site [chemical binding]; other site 985665012073 substrate binding site [chemical binding]; other site 985665012074 homotetramer interface [polypeptide binding]; other site 985665012075 catalytic residue [active] 985665012076 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 985665012077 Predicted membrane protein [Function unknown]; Region: COG3766 985665012078 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 985665012079 Domain of unknown function (DUF4247); Region: DUF4247; pfam14042 985665012080 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 985665012081 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 985665012082 dimer interface [polypeptide binding]; other site 985665012083 putative functional site; other site 985665012084 putative MPT binding site; other site 985665012085 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 985665012086 Walker A motif; other site 985665012087 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 985665012088 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 985665012089 active site 985665012090 DNA binding site [nucleotide binding] 985665012091 Int/Topo IB signature motif; other site 985665012092 Predicted acetyltransferase [General function prediction only]; Region: COG5628 985665012093 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985665012094 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 985665012095 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665012096 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 985665012097 dimer interface [polypeptide binding]; other site 985665012098 conserved gate region; other site 985665012099 putative PBP binding loops; other site 985665012100 ABC-ATPase subunit interface; other site 985665012101 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 985665012102 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 985665012103 dimer interface [polypeptide binding]; other site 985665012104 conserved gate region; other site 985665012105 ABC-ATPase subunit interface; other site 985665012106 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 985665012107 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665012108 Walker A/P-loop; other site 985665012109 ATP binding site [chemical binding]; other site 985665012110 Q-loop/lid; other site 985665012111 ABC transporter signature motif; other site 985665012112 Walker B; other site 985665012113 D-loop; other site 985665012114 H-loop/switch region; other site 985665012115 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 985665012116 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665012117 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 985665012118 Walker A/P-loop; other site 985665012119 ATP binding site [chemical binding]; other site 985665012120 Q-loop/lid; other site 985665012121 ABC transporter signature motif; other site 985665012122 Walker B; other site 985665012123 D-loop; other site 985665012124 H-loop/switch region; other site 985665012125 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 985665012126 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985665012127 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 985665012128 metal binding site [ion binding]; metal-binding site 985665012129 dimer interface [polypeptide binding]; other site 985665012130 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 985665012131 Asp-box motif; other site 985665012132 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 985665012133 Cellulose binding domain; Region: CBM_3; pfam00942 985665012134 Predicted permeases [General function prediction only]; Region: COG0679 985665012135 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 985665012136 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 985665012137 putative NAD(P) binding site [chemical binding]; other site 985665012138 putative active site [active] 985665012139 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 985665012140 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 985665012141 catalytic residues [active] 985665012142 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665012143 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665012144 DNA binding site [nucleotide binding] 985665012145 domain linker motif; other site 985665012146 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 985665012147 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 985665012148 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 985665012149 substrate binding site [chemical binding]; other site 985665012150 dimer interface [polypeptide binding]; other site 985665012151 ATP binding site [chemical binding]; other site 985665012152 D-ribose pyranase; Provisional; Region: PRK11797 985665012153 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 985665012154 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665012155 Walker A/P-loop; other site 985665012156 ATP binding site [chemical binding]; other site 985665012157 Q-loop/lid; other site 985665012158 ABC transporter signature motif; other site 985665012159 Walker B; other site 985665012160 D-loop; other site 985665012161 H-loop/switch region; other site 985665012162 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 985665012163 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 985665012164 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 985665012165 TM-ABC transporter signature motif; other site 985665012166 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 985665012167 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 985665012168 ligand binding site [chemical binding]; other site 985665012169 dimerization interface [polypeptide binding]; other site 985665012170 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 985665012171 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 985665012172 intersubunit interface [polypeptide binding]; other site 985665012173 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665012174 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665012175 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 985665012176 Walker A/P-loop; other site 985665012177 ATP binding site [chemical binding]; other site 985665012178 Q-loop/lid; other site 985665012179 ABC transporter signature motif; other site 985665012180 Walker B; other site 985665012181 D-loop; other site 985665012182 H-loop/switch region; other site 985665012183 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 985665012184 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 985665012185 intersubunit interface [polypeptide binding]; other site 985665012186 potential frameshift: common BLAST hit: gi|308069242|ref|YP_003870847.1| ferrichrome transporter permease fhuB 985665012187 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985665012188 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 985665012189 ABC-ATPase subunit interface; other site 985665012190 dimer interface [polypeptide binding]; other site 985665012191 putative PBP binding regions; other site 985665012192 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 985665012193 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 985665012194 active site 985665012195 DNA binding site [nucleotide binding] 985665012196 Int/Topo IB signature motif; other site 985665012197 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985665012198 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 985665012199 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665012200 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665012201 putative substrate translocation pore; other site 985665012202 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 985665012203 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 985665012204 active site 985665012205 motif I; other site 985665012206 motif II; other site 985665012207 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 985665012208 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985665012209 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 985665012210 nucleotide binding site [chemical binding]; other site 985665012211 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 985665012212 MutS domain III; Region: MutS_III; pfam05192 985665012213 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665012214 Walker A/P-loop; other site 985665012215 ATP binding site [chemical binding]; other site 985665012216 Q-loop/lid; other site 985665012217 ABC transporter signature motif; other site 985665012218 Walker B; other site 985665012219 D-loop; other site 985665012220 H-loop/switch region; other site 985665012221 Helix-turn-helix domain; Region: HTH_18; pfam12833 985665012222 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665012223 Epoxide hydrolase N terminus; Region: EHN; pfam06441 985665012224 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 985665012225 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 985665012226 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665012227 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665012228 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 985665012229 putative dimerization interface [polypeptide binding]; other site 985665012230 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 985665012231 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 985665012232 Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]; Region: ARA1; COG0656 985665012233 catalytic tetrad [active] 985665012234 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665012235 putative substrate translocation pore; other site 985665012236 Protein of unknown function (DUF3900); Region: DUF3900; pfam13039 985665012237 Domain of unknown function (DUF3898); Region: DUF3898; pfam13037 985665012238 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 985665012239 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 985665012240 NAD binding site [chemical binding]; other site 985665012241 dimer interface [polypeptide binding]; other site 985665012242 substrate binding site [chemical binding]; other site 985665012243 tetramer (dimer of dimers) interface [polypeptide binding]; other site 985665012244 amino acid transporter; Region: 2A0306; TIGR00909 985665012245 Spore germination protein; Region: Spore_permease; cl17796 985665012246 Ycf48-like protein; Provisional; Region: PRK13684 985665012247 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 985665012248 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 985665012249 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; pfam09671 985665012250 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 985665012251 Domain of unknown function DUF21; Region: DUF21; pfam01595 985665012252 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 985665012253 Transporter associated domain; Region: CorC_HlyC; smart01091 985665012254 biotin synthase; Validated; Region: PRK06256 985665012255 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 985665012256 FeS/SAM binding site; other site 985665012257 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 985665012258 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 985665012259 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 985665012260 dimer interface [polypeptide binding]; other site 985665012261 active site 985665012262 metal binding site [ion binding]; metal-binding site 985665012263 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 985665012264 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 985665012265 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 985665012266 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 985665012267 active site 985665012268 catalytic residues [active] 985665012269 Transcriptional regulators [Transcription]; Region: FadR; COG2186 985665012270 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665012271 DNA-binding site [nucleotide binding]; DNA binding site 985665012272 FCD domain; Region: FCD; pfam07729 985665012273 2-isopropylmalate synthase; Validated; Region: PRK00915 985665012274 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 985665012275 active site 985665012276 catalytic residues [active] 985665012277 metal binding site [ion binding]; metal-binding site 985665012278 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 985665012279 fumarate hydratase; Reviewed; Region: fumC; PRK00485 985665012280 Class II fumarases; Region: Fumarase_classII; cd01362 985665012281 active site 985665012282 tetramer interface [polypeptide binding]; other site 985665012283 potassium/proton antiporter; Reviewed; Region: PRK05326 985665012284 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 985665012285 TrkA-C domain; Region: TrkA_C; pfam02080 985665012286 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 985665012287 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 985665012288 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 985665012289 non-specific DNA binding site [nucleotide binding]; other site 985665012290 salt bridge; other site 985665012291 sequence-specific DNA binding site [nucleotide binding]; other site 985665012292 Cupin domain; Region: Cupin_2; pfam07883 985665012293 Predicted membrane protein [Function unknown]; Region: COG2259 985665012294 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 985665012295 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_12; cd07255 985665012296 putative metal binding site [ion binding]; other site 985665012297 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 985665012298 active site 985665012299 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 985665012300 glutaminase A; Region: Gln_ase; TIGR03814 985665012301 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 985665012302 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 985665012303 acyl-activating enzyme (AAE) consensus motif; other site 985665012304 AMP binding site [chemical binding]; other site 985665012305 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665012306 Condensation domain; Region: Condensation; pfam00668 985665012307 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665012308 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 985665012309 acyl-activating enzyme (AAE) consensus motif; other site 985665012310 AMP binding site [chemical binding]; other site 985665012311 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665012312 Condensation domain; Region: Condensation; pfam00668 985665012313 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665012314 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 985665012315 Condensation domain; Region: Condensation; pfam00668 985665012316 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 985665012317 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 985665012318 acyl-activating enzyme (AAE) consensus motif; other site 985665012319 AMP binding site [chemical binding]; other site 985665012320 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665012321 Condensation domain; Region: Condensation; pfam00668 985665012322 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 985665012323 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 985665012324 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 985665012325 nudix motif; other site 985665012326 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 985665012327 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 985665012328 ligand-binding site [chemical binding]; other site 985665012329 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 985665012330 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 985665012331 tetramer interface [polypeptide binding]; other site 985665012332 heme binding pocket [chemical binding]; other site 985665012333 NADPH binding site [chemical binding]; other site 985665012334 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 985665012335 putative efflux protein, MATE family; Region: matE; TIGR00797 985665012336 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985665012337 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665012338 Walker A/P-loop; other site 985665012339 ATP binding site [chemical binding]; other site 985665012340 Q-loop/lid; other site 985665012341 ABC transporter signature motif; other site 985665012342 Walker B; other site 985665012343 D-loop; other site 985665012344 H-loop/switch region; other site 985665012345 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985665012346 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665012347 Walker A/P-loop; other site 985665012348 ATP binding site [chemical binding]; other site 985665012349 Q-loop/lid; other site 985665012350 ABC transporter signature motif; other site 985665012351 Walker B; other site 985665012352 D-loop; other site 985665012353 H-loop/switch region; other site 985665012354 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985665012355 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 985665012356 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 985665012357 dimer interface [polypeptide binding]; other site 985665012358 conserved gate region; other site 985665012359 putative PBP binding loops; other site 985665012360 ABC-ATPase subunit interface; other site 985665012361 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665012362 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 985665012363 dimer interface [polypeptide binding]; other site 985665012364 conserved gate region; other site 985665012365 putative PBP binding loops; other site 985665012366 ABC-ATPase subunit interface; other site 985665012367 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985665012368 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 985665012369 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665012370 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985665012371 putative substrate translocation pore; other site 985665012372 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665012373 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665012374 YolD-like protein; Region: YolD; pfam08863 985665012375 integral membrane protein; Region: integ_memb_HG; TIGR03954 985665012376 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 985665012377 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 985665012378 active site 985665012379 FMN binding site [chemical binding]; other site 985665012380 substrate binding site [chemical binding]; other site 985665012381 putative catalytic residue [active] 985665012382 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 985665012383 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665012384 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665012385 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 985665012386 Cupin; Region: Cupin_1; smart00835 985665012387 Cupin; Region: Cupin_1; smart00835 985665012388 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 985665012389 putative deacylase active site [active] 985665012390 hypothetical protein; Provisional; Region: PRK06771 985665012391 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985665012392 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 985665012393 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 985665012394 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 985665012395 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 985665012396 active site 985665012397 substrate binding site [chemical binding]; other site 985665012398 trimer interface [polypeptide binding]; other site 985665012399 CoA binding site [chemical binding]; other site 985665012400 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985665012401 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 985665012402 non-specific DNA binding site [nucleotide binding]; other site 985665012403 salt bridge; other site 985665012404 sequence-specific DNA binding site [nucleotide binding]; other site 985665012405 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 985665012406 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 985665012407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665012408 homodimer interface [polypeptide binding]; other site 985665012409 catalytic residue [active] 985665012410 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665012411 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 985665012412 dimer interface [polypeptide binding]; other site 985665012413 phosphorylation site [posttranslational modification] 985665012414 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665012415 ATP binding site [chemical binding]; other site 985665012416 Mg2+ binding site [ion binding]; other site 985665012417 G-X-G motif; other site 985665012418 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665012419 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665012420 active site 985665012421 phosphorylation site [posttranslational modification] 985665012422 intermolecular recognition site; other site 985665012423 dimerization interface [polypeptide binding]; other site 985665012424 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 985665012425 DNA binding site [nucleotide binding] 985665012426 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 985665012427 Peptidase family M23; Region: Peptidase_M23; pfam01551 985665012428 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 985665012429 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 985665012430 Ca binding site [ion binding]; other site 985665012431 active site 985665012432 catalytic site [active] 985665012433 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 985665012434 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 985665012435 active site turn [active] 985665012436 phosphorylation site [posttranslational modification] 985665012437 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665012438 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985665012439 HPr interaction site; other site 985665012440 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665012441 active site 985665012442 phosphorylation site [posttranslational modification] 985665012443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665012444 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 985665012445 DNA-binding site [nucleotide binding]; DNA binding site 985665012446 UTRA domain; Region: UTRA; pfam07702 985665012447 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 985665012448 beta-galactosidase; Region: BGL; TIGR03356 985665012449 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 985665012450 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 985665012451 active site 985665012452 metal binding site [ion binding]; metal-binding site 985665012453 homotetramer interface [polypeptide binding]; other site 985665012454 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 985665012455 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 985665012456 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 985665012457 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 985665012458 putative active site; other site 985665012459 catalytic triad [active] 985665012460 putative dimer interface [polypeptide binding]; other site 985665012461 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985665012462 Histidine kinase; Region: HisKA_3; pfam07730 985665012463 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665012464 ATP binding site [chemical binding]; other site 985665012465 Mg2+ binding site [ion binding]; other site 985665012466 G-X-G motif; other site 985665012467 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985665012468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665012469 active site 985665012470 phosphorylation site [posttranslational modification] 985665012471 intermolecular recognition site; other site 985665012472 dimerization interface [polypeptide binding]; other site 985665012473 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 985665012474 DNA binding residues [nucleotide binding] 985665012475 dimerization interface [polypeptide binding]; other site 985665012476 Cupin domain; Region: Cupin_2; cl17218 985665012477 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665012478 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665012479 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 985665012480 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 985665012481 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 985665012482 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 985665012483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 985665012484 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665012485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665012486 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 985665012487 dimerization interface [polypeptide binding]; other site 985665012488 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 985665012489 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 985665012490 Coenzyme A transferase; Region: CoA_trans; cl17247 985665012491 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 985665012492 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 985665012493 malonate decarboxylase, beta subunit; Region: malonate_beta; TIGR03133 985665012494 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 985665012495 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 985665012496 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 985665012497 Acyltransferase family; Region: Acyl_transf_3; pfam01757 985665012498 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 985665012499 Beta-lactamase; Region: Beta-lactamase; pfam00144 985665012500 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 985665012501 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 985665012502 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 985665012503 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 985665012504 active site 985665012505 DNA binding site [nucleotide binding] 985665012506 Int/Topo IB signature motif; other site 985665012507 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 985665012508 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985665012509 Transcriptional regulator; Region: Rrf2; pfam02082 985665012510 Predicted ATPase [General function prediction only]; Region: COG3903 985665012511 Tetratricopeptide repeat; Region: TPR_12; pfam13424 985665012512 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 985665012513 azoreductase; Reviewed; Region: PRK00170 985665012514 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985665012515 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 985665012516 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665012517 putative substrate translocation pore; other site 985665012518 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 985665012519 metal-dependent hydrolase; Provisional; Region: PRK00685 985665012520 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665012521 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 985665012522 active site 985665012523 catalytic tetrad [active] 985665012524 short chain dehydrogenase; Provisional; Region: PRK06482 985665012525 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 985665012526 NADP binding site [chemical binding]; other site 985665012527 active site 985665012528 steroid binding site; other site 985665012529 short chain dehydrogenase; Provisional; Region: PRK06482 985665012530 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 985665012531 NADP binding site [chemical binding]; other site 985665012532 active site 985665012533 steroid binding site; other site 985665012534 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665012535 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665012536 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 985665012537 NAD binding site [chemical binding]; other site 985665012538 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 985665012539 active site 985665012540 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665012541 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665012542 dimer interface [polypeptide binding]; other site 985665012543 putative CheW interface [polypeptide binding]; other site 985665012544 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665012545 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665012546 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 985665012547 NADH(P)-binding; Region: NAD_binding_10; pfam13460 985665012548 NAD binding site [chemical binding]; other site 985665012549 active site 985665012550 short chain dehydrogenase; Validated; Region: PRK06182 985665012551 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 985665012552 NADP binding site [chemical binding]; other site 985665012553 active site 985665012554 steroid binding site; other site 985665012555 short chain dehydrogenase; Validated; Region: PRK06182 985665012556 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 985665012557 NADP binding site [chemical binding]; other site 985665012558 active site 985665012559 steroid binding site; other site 985665012560 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665012561 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665012562 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 985665012563 metal binding site [ion binding]; metal-binding site 985665012564 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 985665012565 substrate binding site [chemical binding]; other site 985665012566 active site 985665012567 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 985665012568 metal binding site [ion binding]; metal-binding site 985665012569 ligand binding site [chemical binding]; other site 985665012570 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 985665012571 Ca binding site (active) [ion binding]; other site 985665012572 ligand binding site [chemical binding]; other site 985665012573 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 985665012574 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665012575 Helix-turn-helix domain; Region: HTH_18; pfam12833 985665012576 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665012577 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665012578 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665012579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665012580 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665012581 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665012582 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665012583 Response regulator receiver domain; Region: Response_reg; pfam00072 985665012584 active site 985665012585 phosphorylation site [posttranslational modification] 985665012586 intermolecular recognition site; other site 985665012587 dimerization interface [polypeptide binding]; other site 985665012588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665012589 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665012590 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665012591 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665012592 Histidine kinase; Region: His_kinase; pfam06580 985665012593 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665012594 ATP binding site [chemical binding]; other site 985665012595 Mg2+ binding site [ion binding]; other site 985665012596 G-X-G motif; other site 985665012597 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665012598 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 985665012599 dimer interface [polypeptide binding]; other site 985665012600 conserved gate region; other site 985665012601 putative PBP binding loops; other site 985665012602 ABC-ATPase subunit interface; other site 985665012603 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 985665012604 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 985665012605 dimer interface [polypeptide binding]; other site 985665012606 conserved gate region; other site 985665012607 putative PBP binding loops; other site 985665012608 ABC-ATPase subunit interface; other site 985665012609 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 985665012610 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 985665012611 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 985665012612 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665012613 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665012614 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 985665012615 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 985665012616 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 985665012617 active site 985665012618 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 985665012619 Interdomain contacts; other site 985665012620 S-layer homology domain; Region: SLH; pfam00395 985665012621 S-layer homology domain; Region: SLH; pfam00395 985665012622 potential frameshift: common BLAST hit: gi|337748805|ref|YP_004642967.1| xylanase A 985665012623 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665012624 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 985665012625 dimer interface [polypeptide binding]; other site 985665012626 conserved gate region; other site 985665012627 ABC-ATPase subunit interface; other site 985665012628 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665012629 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 985665012630 dimer interface [polypeptide binding]; other site 985665012631 conserved gate region; other site 985665012632 ABC-ATPase subunit interface; other site 985665012633 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665012634 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665012635 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665012636 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 985665012637 dimerization interface [polypeptide binding]; other site 985665012638 Histidine kinase; Region: His_kinase; pfam06580 985665012639 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665012640 ATP binding site [chemical binding]; other site 985665012641 Mg2+ binding site [ion binding]; other site 985665012642 G-X-G motif; other site 985665012643 potential frameshift: common BLAST hit: gi|337747740|ref|YP_004641902.1| YesN12 985665012644 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 985665012645 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 985665012646 active site 985665012647 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 985665012648 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 985665012649 active site 985665012650 Ca binding site [ion binding]; other site 985665012651 catalytic site [active] 985665012652 Aamy_C domain; Region: Aamy_C; smart00632 985665012653 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 985665012654 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 985665012655 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 985665012656 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 985665012657 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 985665012658 active site 985665012659 catalytic site [active] 985665012660 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 985665012661 Cation efflux family; Region: Cation_efflux; cl00316 985665012662 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 985665012663 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 985665012664 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 985665012665 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 985665012666 HlyD family secretion protein; Region: HlyD_3; pfam13437 985665012667 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985665012668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665012669 active site 985665012670 phosphorylation site [posttranslational modification] 985665012671 intermolecular recognition site; other site 985665012672 dimerization interface [polypeptide binding]; other site 985665012673 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 985665012674 DNA binding residues [nucleotide binding] 985665012675 dimerization interface [polypeptide binding]; other site 985665012676 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985665012677 Histidine kinase; Region: HisKA_3; pfam07730 985665012678 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665012679 ATP binding site [chemical binding]; other site 985665012680 Mg2+ binding site [ion binding]; other site 985665012681 G-X-G motif; other site 985665012682 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 985665012683 Domain of unknown function DUF20; Region: UPF0118; pfam01594 985665012684 Transposase, Mutator family; Region: Transposase_mut; pfam00872 985665012685 MULE transposase domain; Region: MULE; pfam10551 985665012686 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 985665012687 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 985665012688 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 985665012689 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 985665012690 substrate binding [chemical binding]; other site 985665012691 active site 985665012692 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 985665012693 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665012694 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665012695 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665012696 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 985665012697 dimer interface [polypeptide binding]; other site 985665012698 conserved gate region; other site 985665012699 putative PBP binding loops; other site 985665012700 ABC-ATPase subunit interface; other site 985665012701 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665012702 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 985665012703 dimer interface [polypeptide binding]; other site 985665012704 conserved gate region; other site 985665012705 putative PBP binding loops; other site 985665012706 ABC-ATPase subunit interface; other site 985665012707 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665012708 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665012709 DNA binding site [nucleotide binding] 985665012710 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 985665012711 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 985665012712 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 985665012713 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 985665012714 Spore germination protein; Region: Spore_permease; cl17796 985665012715 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 985665012716 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 985665012717 Malic enzyme, N-terminal domain; Region: malic; pfam00390 985665012718 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 985665012719 putative NAD(P) binding site [chemical binding]; other site 985665012720 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 985665012721 Aspartase; Region: Aspartase; cd01357 985665012722 active sites [active] 985665012723 tetramer interface [polypeptide binding]; other site 985665012724 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 985665012725 aspartate racemase; Region: asp_race; TIGR00035 985665012726 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 985665012727 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 985665012728 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665012729 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665012730 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 985665012731 dimerization interface [polypeptide binding]; other site 985665012732 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 985665012733 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665012734 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 985665012735 dimer interface [polypeptide binding]; other site 985665012736 conserved gate region; other site 985665012737 putative PBP binding loops; other site 985665012738 ABC-ATPase subunit interface; other site 985665012739 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 985665012740 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 985665012741 dimer interface [polypeptide binding]; other site 985665012742 conserved gate region; other site 985665012743 putative PBP binding loops; other site 985665012744 ABC-ATPase subunit interface; other site 985665012745 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 985665012746 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 985665012747 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 985665012748 PAS domain S-box; Region: sensory_box; TIGR00229 985665012749 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 985665012750 putative active site [active] 985665012751 heme pocket [chemical binding]; other site 985665012752 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 985665012753 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 985665012754 metal binding site [ion binding]; metal-binding site 985665012755 active site 985665012756 I-site; other site 985665012757 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 985665012758 non-specific DNA binding site [nucleotide binding]; other site 985665012759 salt bridge; other site 985665012760 sequence-specific DNA binding site [nucleotide binding]; other site 985665012761 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 985665012762 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 985665012763 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 985665012764 active site 985665012765 DNA binding site [nucleotide binding] 985665012766 Int/Topo IB signature motif; other site 985665012767 NADH(P)-binding; Region: NAD_binding_10; pfam13460 985665012768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665012769 NAD(P) binding site [chemical binding]; other site 985665012770 active site 985665012771 light-dependent protochlorophyllide reductase; Region: LPOR; TIGR01289 985665012772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665012773 NAD(P) binding site [chemical binding]; other site 985665012774 active site 985665012775 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 985665012776 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 985665012777 putative NAD(P) binding site [chemical binding]; other site 985665012778 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 985665012779 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 985665012780 DNA binding residues [nucleotide binding] 985665012781 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985665012782 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985665012783 potential frameshift: common BLAST hit: gi|337750243|ref|YP_004644405.1| mutator family transposase 985665012784 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 985665012785 Transcriptional regulator; Region: Rrf2; pfam02082 985665012786 Rrf2 family protein; Region: rrf2_super; TIGR00738 985665012787 Transcriptional regulator; Region: Rrf2; cl17282 985665012788 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 985665012789 nucleotide binding region [chemical binding]; other site 985665012790 ATP-binding site [chemical binding]; other site 985665012791 Anti-repressor SinI; Region: SinI; pfam08671 985665012792 conserved hypothetical protein; Region: TIGR02231 985665012793 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 985665012794 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 985665012795 Catalytic site [active] 985665012796 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 985665012797 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 985665012798 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 985665012799 non-specific DNA binding site [nucleotide binding]; other site 985665012800 salt bridge; other site 985665012801 sequence-specific DNA binding site [nucleotide binding]; other site 985665012802 Anti-repressor SinI; Region: SinI; pfam08671 985665012803 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 985665012804 classical (c) SDRs; Region: SDR_c; cd05233 985665012805 NAD(P) binding site [chemical binding]; other site 985665012806 active site 985665012807 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 985665012808 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 985665012809 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 985665012810 active site 985665012811 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 985665012812 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665012813 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665012814 putative substrate translocation pore; other site 985665012815 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 985665012816 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 985665012817 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665012818 Walker A/P-loop; other site 985665012819 ATP binding site [chemical binding]; other site 985665012820 Q-loop/lid; other site 985665012821 ABC transporter signature motif; other site 985665012822 Walker B; other site 985665012823 D-loop; other site 985665012824 H-loop/switch region; other site 985665012825 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 985665012826 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665012827 Walker A/P-loop; other site 985665012828 ATP binding site [chemical binding]; other site 985665012829 Q-loop/lid; other site 985665012830 ABC transporter signature motif; other site 985665012831 Walker B; other site 985665012832 D-loop; other site 985665012833 H-loop/switch region; other site 985665012834 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985665012835 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 985665012836 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 985665012837 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 985665012838 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 985665012839 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 985665012840 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665012841 Coenzyme A binding pocket [chemical binding]; other site 985665012842 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 985665012843 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665012844 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 985665012845 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665012846 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 985665012847 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 985665012848 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665012849 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 985665012850 dimer interface [polypeptide binding]; other site 985665012851 conserved gate region; other site 985665012852 putative PBP binding loops; other site 985665012853 ABC-ATPase subunit interface; other site 985665012854 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665012855 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 985665012856 dimer interface [polypeptide binding]; other site 985665012857 putative PBP binding loops; other site 985665012858 ABC-ATPase subunit interface; other site 985665012859 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 985665012860 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665012861 DNA-binding site [nucleotide binding]; DNA binding site 985665012862 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 985665012863 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 985665012864 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 985665012865 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 985665012866 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 985665012867 Walker A/P-loop; other site 985665012868 ATP binding site [chemical binding]; other site 985665012869 Q-loop/lid; other site 985665012870 ABC transporter signature motif; other site 985665012871 Walker B; other site 985665012872 D-loop; other site 985665012873 H-loop/switch region; other site 985665012874 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 985665012875 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 985665012876 FtsX-like permease family; Region: FtsX; pfam02687 985665012877 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665012878 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 985665012879 dimerization interface [polypeptide binding]; other site 985665012880 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 985665012881 dimer interface [polypeptide binding]; other site 985665012882 phosphorylation site [posttranslational modification] 985665012883 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665012884 ATP binding site [chemical binding]; other site 985665012885 Mg2+ binding site [ion binding]; other site 985665012886 G-X-G motif; other site 985665012887 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665012888 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665012889 active site 985665012890 phosphorylation site [posttranslational modification] 985665012891 intermolecular recognition site; other site 985665012892 dimerization interface [polypeptide binding]; other site 985665012893 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 985665012894 DNA binding site [nucleotide binding] 985665012895 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 985665012896 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 985665012897 dimer interface [polypeptide binding]; other site 985665012898 conserved gate region; other site 985665012899 putative PBP binding loops; other site 985665012900 ABC-ATPase subunit interface; other site 985665012901 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 985665012902 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 985665012903 Walker A/P-loop; other site 985665012904 ATP binding site [chemical binding]; other site 985665012905 Q-loop/lid; other site 985665012906 ABC transporter signature motif; other site 985665012907 Walker B; other site 985665012908 D-loop; other site 985665012909 H-loop/switch region; other site 985665012910 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 985665012911 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 985665012912 substrate binding pocket [chemical binding]; other site 985665012913 membrane-bound complex binding site; other site 985665012914 hinge residues; other site 985665012915 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 985665012916 glutamate carboxypeptidase; Reviewed; Region: PRK06133 985665012917 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 985665012918 metal binding site [ion binding]; metal-binding site 985665012919 dimer interface [polypeptide binding]; other site 985665012920 Uncharacterized conserved protein [Function unknown]; Region: COG3379 985665012921 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 985665012922 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665012923 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 985665012924 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 985665012925 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665012926 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 985665012927 dimer interface [polypeptide binding]; other site 985665012928 conserved gate region; other site 985665012929 putative PBP binding loops; other site 985665012930 ABC-ATPase subunit interface; other site 985665012931 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665012932 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 985665012933 dimer interface [polypeptide binding]; other site 985665012934 conserved gate region; other site 985665012935 putative PBP binding loops; other site 985665012936 ABC-ATPase subunit interface; other site 985665012937 aspartate aminotransferase; Provisional; Region: PRK05764 985665012938 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 985665012939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665012940 homodimer interface [polypeptide binding]; other site 985665012941 catalytic residue [active] 985665012942 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 985665012943 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 985665012944 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 985665012945 Spore germination protein; Region: Spore_permease; cl17796 985665012946 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 985665012947 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 985665012948 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 985665012949 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665012950 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665012951 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665012952 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 985665012953 conserved gate region; other site 985665012954 ABC-ATPase subunit interface; other site 985665012955 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665012956 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 985665012957 dimer interface [polypeptide binding]; other site 985665012958 conserved gate region; other site 985665012959 ABC-ATPase subunit interface; other site 985665012960 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 985665012961 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 985665012962 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 985665012963 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 985665012964 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 985665012965 NAD(P) binding site [chemical binding]; other site 985665012966 LDH/MDH dimer interface [polypeptide binding]; other site 985665012967 substrate binding site [chemical binding]; other site 985665012968 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985665012969 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 985665012970 nucleotide binding site [chemical binding]; other site 985665012971 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 985665012972 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 985665012973 active site 985665012974 trimer interface [polypeptide binding]; other site 985665012975 allosteric site; other site 985665012976 active site lid [active] 985665012977 hexamer (dimer of trimers) interface [polypeptide binding]; other site 985665012978 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 985665012979 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985665012980 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 985665012981 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 985665012982 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 985665012983 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 985665012984 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 985665012985 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665012986 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665012987 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 985665012988 dimer interface [polypeptide binding]; other site 985665012989 conserved gate region; other site 985665012990 putative PBP binding loops; other site 985665012991 ABC-ATPase subunit interface; other site 985665012992 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665012993 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 985665012994 dimer interface [polypeptide binding]; other site 985665012995 conserved gate region; other site 985665012996 putative PBP binding loops; other site 985665012997 ABC-ATPase subunit interface; other site 985665012998 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 985665012999 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665013000 active site 985665013001 phosphorylation site [posttranslational modification] 985665013002 intermolecular recognition site; other site 985665013003 dimerization interface [polypeptide binding]; other site 985665013004 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665013005 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665013006 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 985665013007 dimerization interface [polypeptide binding]; other site 985665013008 Histidine kinase; Region: His_kinase; pfam06580 985665013009 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665013010 ATP binding site [chemical binding]; other site 985665013011 Mg2+ binding site [ion binding]; other site 985665013012 G-X-G motif; other site 985665013013 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 985665013014 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 985665013015 Ca binding site [ion binding]; other site 985665013016 active site 985665013017 catalytic site [active] 985665013018 potential frameshift: common BLAST hit: gi|336236304|ref|YP_004588920.1| LacI family transcriptional regulator 985665013019 Transcriptional regulators [Transcription]; Region: GntR; COG1802 985665013020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665013021 DNA-binding site [nucleotide binding]; DNA binding site 985665013022 FCD domain; Region: FCD; pfam07729 985665013023 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 985665013024 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 985665013025 N- and C-terminal domain interface [polypeptide binding]; other site 985665013026 active site 985665013027 catalytic site [active] 985665013028 metal binding site [ion binding]; metal-binding site 985665013029 carbohydrate binding site [chemical binding]; other site 985665013030 ATP binding site [chemical binding]; other site 985665013031 fructuronate transporter; Provisional; Region: PRK10034; cl15264 985665013032 gluconate transporter; Region: gntP; TIGR00791 985665013033 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 985665013034 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 985665013035 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 985665013036 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 985665013037 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665013038 Coenzyme A binding pocket [chemical binding]; other site 985665013039 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985665013040 MarR family; Region: MarR; pfam01047 985665013041 Predicted membrane protein [Function unknown]; Region: COG2364 985665013042 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 985665013043 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 985665013044 motif II; other site 985665013045 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 985665013046 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 985665013047 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665013048 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665013049 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 985665013050 dimer interface [polypeptide binding]; other site 985665013051 catalytic triad [active] 985665013052 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 985665013053 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 985665013054 active site 985665013055 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 985665013056 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 985665013057 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 985665013058 active site 985665013059 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 985665013060 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665013061 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665013062 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665013063 putative oxidoreductase; Provisional; Region: PRK10206 985665013064 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665013065 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 985665013066 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 985665013067 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 985665013068 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 985665013069 putative active site [active] 985665013070 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 985665013071 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665013072 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 985665013073 Catalytic NodB homology domain of Streptomyces lividans acetylxylan esterase and its bacterial homologs; Region: CE4_SlAXE_like; cd10953 985665013074 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 985665013075 NodB motif; other site 985665013076 active site 985665013077 catalytic site [active] 985665013078 Zn binding site [ion binding]; other site 985665013079 dimer interface [polypeptide binding]; other site 985665013080 Carbohydrate Binding Module families 36 (CBM36) and 6 (CBM6); appended mainly to glycoside hydrolase family 11 (GH11) domains; xylan binding; Region: CBM6_36_xylanase-like; cd04078 985665013081 Ca binding site [ion binding]; other site 985665013082 Ca binding site (active) [ion binding]; other site 985665013083 ligand binding site [chemical binding]; other site 985665013084 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 985665013085 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 985665013086 metal binding site [ion binding]; metal-binding site 985665013087 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 985665013088 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 985665013089 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 985665013090 cytosine deaminase; Provisional; Region: PRK05985 985665013091 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 985665013092 active site 985665013093 Cupin domain; Region: Cupin_2; cl17218 985665013094 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 985665013095 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 985665013096 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 985665013097 FAD binding domain; Region: FAD_binding_4; pfam01565 985665013098 NMT1/THI5 like; Region: NMT1; pfam09084 985665013099 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 985665013100 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 985665013101 Creatinine amidohydrolase; Region: Creatininase; pfam02633 985665013102 Amidase; Region: Amidase; cl11426 985665013103 indole-3-acetamide amidohydrolase; Region: PLN02722 985665013104 Isochorismatase family; Region: Isochorismatase; pfam00857 985665013105 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 985665013106 catalytic triad [active] 985665013107 conserved cis-peptide bond; other site 985665013108 NMT1/THI5 like; Region: NMT1; pfam09084 985665013109 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 985665013110 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 985665013111 membrane-bound complex binding site; other site 985665013112 hinge residues; other site 985665013113 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 985665013114 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 985665013115 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 985665013116 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 985665013117 Walker A/P-loop; other site 985665013118 ATP binding site [chemical binding]; other site 985665013119 Q-loop/lid; other site 985665013120 ABC transporter signature motif; other site 985665013121 Walker B; other site 985665013122 D-loop; other site 985665013123 H-loop/switch region; other site 985665013124 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 985665013125 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 985665013126 glycerol kinase; Provisional; Region: glpK; PRK00047 985665013127 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 985665013128 N- and C-terminal domain interface [polypeptide binding]; other site 985665013129 active site 985665013130 MgATP binding site [chemical binding]; other site 985665013131 catalytic site [active] 985665013132 metal binding site [ion binding]; metal-binding site 985665013133 glycerol binding site [chemical binding]; other site 985665013134 homotetramer interface [polypeptide binding]; other site 985665013135 homodimer interface [polypeptide binding]; other site 985665013136 FBP binding site [chemical binding]; other site 985665013137 protein IIAGlc interface [polypeptide binding]; other site 985665013138 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 985665013139 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 985665013140 PYR/PP interface [polypeptide binding]; other site 985665013141 dimer interface [polypeptide binding]; other site 985665013142 TPP binding site [chemical binding]; other site 985665013143 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985665013144 transketolase; Reviewed; Region: PRK05899 985665013145 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 985665013146 TPP-binding site [chemical binding]; other site 985665013147 dimer interface [polypeptide binding]; other site 985665013148 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 985665013149 hexamer (dimer of trimers) interface [polypeptide binding]; other site 985665013150 substrate binding site [chemical binding]; other site 985665013151 trimer interface [polypeptide binding]; other site 985665013152 Mn binding site [ion binding]; other site 985665013153 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985665013154 HTH domain; Region: HTH_11; pfam08279 985665013155 Mga helix-turn-helix domain; Region: Mga; pfam05043 985665013156 PRD domain; Region: PRD; pfam00874 985665013157 PRD domain; Region: PRD; pfam00874 985665013158 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 985665013159 active site 985665013160 P-loop; other site 985665013161 phosphorylation site [posttranslational modification] 985665013162 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 985665013163 active site 985665013164 phosphorylation site [posttranslational modification] 985665013165 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 985665013166 methionine cluster; other site 985665013167 active site 985665013168 phosphorylation site [posttranslational modification] 985665013169 metal binding site [ion binding]; metal-binding site 985665013170 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 985665013171 active site 985665013172 P-loop; other site 985665013173 phosphorylation site [posttranslational modification] 985665013174 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 985665013175 beta-galactosidase; Region: BGL; TIGR03356 985665013176 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 985665013177 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 985665013178 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 985665013179 trehalose synthase; Region: treS_nterm; TIGR02456 985665013180 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 985665013181 Ca binding site [ion binding]; other site 985665013182 active site 985665013183 catalytic site [active] 985665013184 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 985665013185 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665013186 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665013187 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 985665013188 Cupin domain; Region: Cupin_2; pfam07883 985665013189 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665013190 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665013191 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665013192 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 985665013193 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 985665013194 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 985665013195 active site 985665013196 motif I; other site 985665013197 motif II; other site 985665013198 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 985665013199 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 985665013200 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 985665013201 active site 985665013202 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665013203 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665013204 DNA binding site [nucleotide binding] 985665013205 domain linker motif; other site 985665013206 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 985665013207 putative ligand binding site [chemical binding]; other site 985665013208 putative dimerization interface [polypeptide binding]; other site 985665013209 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 985665013210 Melibiase; Region: Melibiase; pfam02065 985665013211 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 985665013212 Interdomain contacts; other site 985665013213 Cytokine receptor motif; other site 985665013214 Fibronectin type 3 domain; Region: FN3; smart00060 985665013215 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665013216 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 985665013217 putative homodimer interface [polypeptide binding]; other site 985665013218 putative homotetramer interface [polypeptide binding]; other site 985665013219 putative metal binding site [ion binding]; other site 985665013220 putative homodimer-homodimer interface [polypeptide binding]; other site 985665013221 putative allosteric switch controlling residues; other site 985665013222 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 985665013223 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 985665013224 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 985665013225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665013226 NAD(P) binding site [chemical binding]; other site 985665013227 active site 985665013228 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665013229 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665013230 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 985665013231 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 985665013232 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665013233 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665013234 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 985665013235 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 985665013236 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 985665013237 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 985665013238 acyl-activating enzyme (AAE) consensus motif; other site 985665013239 AMP binding site [chemical binding]; other site 985665013240 active site 985665013241 CoA binding site [chemical binding]; other site 985665013242 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 985665013243 H+ Antiporter protein; Region: 2A0121; TIGR00900 985665013244 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665013245 putative substrate translocation pore; other site 985665013246 Condensation domain; Region: Condensation; pfam00668 985665013247 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665013248 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 985665013249 acyl-activating enzyme (AAE) consensus motif; other site 985665013250 AMP binding site [chemical binding]; other site 985665013251 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665013252 Condensation domain; Region: Condensation; pfam00668 985665013253 potential frameshift: common BLAST hit: gi|310642105|ref|YP_003946863.1| non-ribosomal peptide synthase, pvdj(2) 985665013254 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 985665013255 The adenylation domain of nonribosomal peptide synthetases (NRPS) similar to mycosubtilin synthase subunit A (MycA); Region: A_NRPS_MycA_like; cd05908 985665013256 acyl-activating enzyme (AAE) consensus motif; other site 985665013257 putative AMP binding site [chemical binding]; other site 985665013258 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665013259 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 985665013260 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 985665013261 active site 985665013262 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665013263 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 985665013264 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 985665013265 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985665013266 catalytic residue [active] 985665013267 Condensation domain; Region: Condensation; pfam00668 985665013268 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665013269 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 985665013270 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 985665013271 CoA binding site [chemical binding]; other site 985665013272 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665013273 Condensation domain; Region: Condensation; pfam00668 985665013274 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665013275 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 985665013276 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 985665013277 acyl-activating enzyme (AAE) consensus motif; other site 985665013278 AMP binding site [chemical binding]; other site 985665013279 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665013280 Condensation domain; Region: Condensation; pfam00668 985665013281 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665013282 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 985665013283 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 985665013284 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 985665013285 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 985665013286 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 985665013287 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 985665013288 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 985665013289 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 985665013290 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665013291 Coenzyme A binding pocket [chemical binding]; other site 985665013292 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 985665013293 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985665013294 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 985665013295 Ferritin-like domain; Region: Ferritin; pfam00210 985665013296 ferroxidase diiron center [ion binding]; other site 985665013297 Glycosyl hydrolase family 48; Region: Glyco_hydro_48; pfam02011 985665013298 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 985665013299 Interdomain contacts; other site 985665013300 Cytokine receptor motif; other site 985665013301 Cellulose binding domain; Region: CBM_3; pfam00942 985665013302 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 985665013303 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 985665013304 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 985665013305 DNA interaction; other site 985665013306 Metal-binding active site; metal-binding site 985665013307 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 985665013308 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 985665013309 N-terminal domain of cellobiose phosphorylase (CBP) and similar proteins; Region: GH94N_CBP_like; cd11754 985665013310 catalytic domain interface [polypeptide binding]; other site 985665013311 homodimer interface [polypeptide binding]; other site 985665013312 putative active site [active] 985665013313 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 985665013314 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 985665013315 metal binding site [ion binding]; metal-binding site 985665013316 active site 985665013317 I-site; other site 985665013318 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 985665013319 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 985665013320 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 985665013321 inhibitor-cofactor binding pocket; inhibition site 985665013322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665013323 catalytic residue [active] 985665013324 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665013325 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665013326 active site 985665013327 phosphorylation site [posttranslational modification] 985665013328 intermolecular recognition site; other site 985665013329 dimerization interface [polypeptide binding]; other site 985665013330 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 985665013331 DNA binding site [nucleotide binding] 985665013332 PAS domain S-box; Region: sensory_box; TIGR00229 985665013333 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 985665013334 dimer interface [polypeptide binding]; other site 985665013335 phosphorylation site [posttranslational modification] 985665013336 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665013337 ATP binding site [chemical binding]; other site 985665013338 Mg2+ binding site [ion binding]; other site 985665013339 G-X-G motif; other site 985665013340 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 985665013341 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665013342 active site 985665013343 phosphorylation site [posttranslational modification] 985665013344 intermolecular recognition site; other site 985665013345 dimerization interface [polypeptide binding]; other site 985665013346 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 985665013347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665013348 active site 985665013349 phosphorylation site [posttranslational modification] 985665013350 intermolecular recognition site; other site 985665013351 dimerization interface [polypeptide binding]; other site 985665013352 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 985665013353 Cache domain; Region: Cache_1; pfam02743 985665013354 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 985665013355 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 985665013356 dimerization interface [polypeptide binding]; other site 985665013357 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665013358 dimer interface [polypeptide binding]; other site 985665013359 putative CheW interface [polypeptide binding]; other site 985665013360 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 985665013361 Protein of unknown function, DUF255; Region: DUF255; pfam03190 985665013362 Baseplate J-like protein; Region: Baseplate_J; cl01294 985665013363 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 985665013364 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 985665013365 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 985665013366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 985665013367 Transposase; Region: DDE_Tnp_ISL3; pfam01610 985665013368 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 985665013369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 985665013370 Transposase; Region: HTH_Tnp_1; pfam01527 985665013371 putative transposase OrfB; Reviewed; Region: PHA02517 985665013372 HTH-like domain; Region: HTH_21; pfam13276 985665013373 Integrase core domain; Region: rve; pfam00665 985665013374 Integrase core domain; Region: rve_3; pfam13683 985665013375 TIR domain; Region: TIR_2; pfam13676 985665013376 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 985665013377 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 985665013378 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665013379 Coenzyme A binding pocket [chemical binding]; other site 985665013380 Uncharacterized conserved protein [Function unknown]; Region: COG0397 985665013381 hypothetical protein; Validated; Region: PRK00029 985665013382 Homeodomain-like domain; Region: HTH_23; pfam13384 985665013383 Winged helix-turn helix; Region: HTH_29; pfam13551 985665013384 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 985665013385 homotrimer interaction site [polypeptide binding]; other site 985665013386 putative active site [active] 985665013387 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 985665013388 S-adenosylmethionine binding site [chemical binding]; other site 985665013389 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985665013390 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 985665013391 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 985665013392 Predicted transcriptional regulator [Transcription]; Region: COG1959 985665013393 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 985665013394 Domain of unknown function DUF; Region: DUF204; pfam02659 985665013395 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 985665013396 non-specific DNA binding site [nucleotide binding]; other site 985665013397 salt bridge; other site 985665013398 sequence-specific DNA binding site [nucleotide binding]; other site 985665013399 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 985665013400 Protein of unknown function (DUF523); Region: DUF523; cl00733 985665013401 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 985665013402 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 985665013403 Walker A/P-loop; other site 985665013404 ATP binding site [chemical binding]; other site 985665013405 Q-loop/lid; other site 985665013406 ABC transporter signature motif; other site 985665013407 Walker B; other site 985665013408 D-loop; other site 985665013409 H-loop/switch region; other site 985665013410 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 985665013411 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 985665013412 Walker A/P-loop; other site 985665013413 ATP binding site [chemical binding]; other site 985665013414 Q-loop/lid; other site 985665013415 ABC transporter signature motif; other site 985665013416 Walker B; other site 985665013417 D-loop; other site 985665013418 H-loop/switch region; other site 985665013419 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 985665013420 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 985665013421 Protein of unknown function (DUF3782); Region: DUF3782; pfam12644 985665013422 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 985665013423 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 985665013424 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 985665013425 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665013426 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 985665013427 putative DNA binding site [nucleotide binding]; other site 985665013428 putative Zn2+ binding site [ion binding]; other site 985665013429 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665013430 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665013431 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 985665013432 active site 985665013433 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 985665013434 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 985665013435 DNA binding site [nucleotide binding] 985665013436 active site 985665013437 Int/Topo IB signature motif; other site 985665013438 catalytic residues [active] 985665013439 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 985665013440 RNA binding surface [nucleotide binding]; other site 985665013441 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 985665013442 pseudouridine synthase; Region: TIGR00093 985665013443 probable active site [active] 985665013444 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 985665013445 dimer interface [polypeptide binding]; other site 985665013446 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985665013447 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 985665013448 G2 box; other site 985665013449 Switch I region; other site 985665013450 G3 box; other site 985665013451 Switch II region; other site 985665013452 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665013453 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985665013454 hypothetical protein; Provisional; Region: PRK09739 985665013455 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985665013456 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 985665013457 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 985665013458 ABC-ATPase subunit interface; other site 985665013459 dimer interface [polypeptide binding]; other site 985665013460 putative PBP binding regions; other site 985665013461 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 985665013462 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 985665013463 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 985665013464 hypothetical protein; Provisional; Region: PRK12378 985665013465 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 985665013466 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 985665013467 active site 985665013468 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665013469 HAMP domain; Region: HAMP; pfam00672 985665013470 dimerization interface [polypeptide binding]; other site 985665013471 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 985665013472 dimer interface [polypeptide binding]; other site 985665013473 phosphorylation site [posttranslational modification] 985665013474 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665013475 ATP binding site [chemical binding]; other site 985665013476 Mg2+ binding site [ion binding]; other site 985665013477 G-X-G motif; other site 985665013478 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665013479 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665013480 active site 985665013481 phosphorylation site [posttranslational modification] 985665013482 intermolecular recognition site; other site 985665013483 dimerization interface [polypeptide binding]; other site 985665013484 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 985665013485 DNA binding site [nucleotide binding] 985665013486 Phosphoesterase family; Region: Phosphoesterase; pfam04185 985665013487 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 985665013488 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 985665013489 putative deacylase active site [active] 985665013490 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 985665013491 AAA domain; Region: AAA_17; pfam13207 985665013492 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 985665013493 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 985665013494 substrate binding site [chemical binding]; other site 985665013495 ATP binding site [chemical binding]; other site 985665013496 alpha-galactosidase; Region: PLN02808; cl17638 985665013497 hypothetical protein; Validated; Region: PRK01415 985665013498 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 985665013499 active site residue [active] 985665013500 Predicted permeases [General function prediction only]; Region: COG0679 985665013501 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 985665013502 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 985665013503 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 985665013504 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 985665013505 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 985665013506 Soluble P-type ATPase [General function prediction only]; Region: COG4087 985665013507 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 985665013508 polyphosphate kinase; Provisional; Region: PRK05443 985665013509 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 985665013510 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 985665013511 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 985665013512 putative domain interface [polypeptide binding]; other site 985665013513 putative active site [active] 985665013514 catalytic site [active] 985665013515 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 985665013516 putative domain interface [polypeptide binding]; other site 985665013517 putative active site [active] 985665013518 catalytic site [active] 985665013519 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 985665013520 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 985665013521 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 985665013522 Walker A/P-loop; other site 985665013523 ATP binding site [chemical binding]; other site 985665013524 Q-loop/lid; other site 985665013525 ABC transporter signature motif; other site 985665013526 Walker B; other site 985665013527 D-loop; other site 985665013528 H-loop/switch region; other site 985665013529 Predicted membrane protein [Function unknown]; Region: COG2323 985665013530 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 985665013531 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 985665013532 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 985665013533 active site 985665013534 Cupin domain; Region: Cupin_2; cl17218 985665013535 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 985665013536 active site 985665013537 Zn binding site [ion binding]; other site 985665013538 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 985665013539 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 985665013540 putative ADP-binding pocket [chemical binding]; other site 985665013541 NlpC/P60 family; Region: NLPC_P60; pfam00877 985665013542 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665013543 HAMP domain; Region: HAMP; pfam00672 985665013544 dimerization interface [polypeptide binding]; other site 985665013545 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 985665013546 dimer interface [polypeptide binding]; other site 985665013547 phosphorylation site [posttranslational modification] 985665013548 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665013549 ATP binding site [chemical binding]; other site 985665013550 Mg2+ binding site [ion binding]; other site 985665013551 G-X-G motif; other site 985665013552 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665013553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665013554 active site 985665013555 phosphorylation site [posttranslational modification] 985665013556 intermolecular recognition site; other site 985665013557 dimerization interface [polypeptide binding]; other site 985665013558 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 985665013559 DNA binding site [nucleotide binding] 985665013560 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 985665013561 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 985665013562 active site 985665013563 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 985665013564 quinolinate synthetase; Provisional; Region: PRK09375 985665013565 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 985665013566 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 985665013567 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985665013568 catalytic residue [active] 985665013569 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 985665013570 HTH domain; Region: HTH_11; pfam08279 985665013571 3H domain; Region: 3H; pfam02829 985665013572 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 985665013573 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 985665013574 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 985665013575 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 985665013576 generic binding surface II; other site 985665013577 generic binding surface I; other site 985665013578 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 985665013579 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 985665013580 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 985665013581 Beta-lactamase; Region: Beta-lactamase; pfam00144 985665013582 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 985665013583 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 985665013584 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 985665013585 acyl-activating enzyme (AAE) consensus motif; other site 985665013586 AMP binding site [chemical binding]; other site 985665013587 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665013588 Condensation domain; Region: Condensation; pfam00668 985665013589 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665013590 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 985665013591 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 985665013592 acyl-activating enzyme (AAE) consensus motif; other site 985665013593 AMP binding site [chemical binding]; other site 985665013594 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665013595 Condensation domain; Region: Condensation; pfam00668 985665013596 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665013597 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 985665013598 Condensation domain; Region: Condensation; pfam00668 985665013599 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 985665013600 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 985665013601 acyl-activating enzyme (AAE) consensus motif; other site 985665013602 AMP binding site [chemical binding]; other site 985665013603 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 985665013604 Thioesterase domain; Region: Thioesterase; pfam00975 985665013605 potential frameshift: common BLAST hit: gi|308068946|ref|YP_003870551.1| bacitracin synthetase 1 985665013606 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 985665013607 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 985665013608 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 985665013609 active site 985665013610 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665013611 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 985665013612 putative substrate translocation pore; other site 985665013613 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665013614 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665013615 MarR family; Region: MarR; pfam01047 985665013616 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985665013617 MarR family; Region: MarR; pfam01047 985665013618 DNA gyrase subunit A; Validated; Region: PRK05560 985665013619 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 985665013620 CAP-like domain; other site 985665013621 active site 985665013622 primary dimer interface [polypeptide binding]; other site 985665013623 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985665013624 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985665013625 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 985665013626 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 985665013627 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665013628 ATP binding site [chemical binding]; other site 985665013629 Mg2+ binding site [ion binding]; other site 985665013630 G-X-G motif; other site 985665013631 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 985665013632 anchoring element; other site 985665013633 dimer interface [polypeptide binding]; other site 985665013634 ATP binding site [chemical binding]; other site 985665013635 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 985665013636 active site 985665013637 metal binding site [ion binding]; metal-binding site 985665013638 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 985665013639 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 985665013640 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 985665013641 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 985665013642 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 985665013643 Walker A/P-loop; other site 985665013644 ATP binding site [chemical binding]; other site 985665013645 Q-loop/lid; other site 985665013646 ABC transporter signature motif; other site 985665013647 Walker B; other site 985665013648 D-loop; other site 985665013649 H-loop/switch region; other site 985665013650 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 985665013651 active site 985665013652 catalytic triad [active] 985665013653 oxyanion hole [active] 985665013654 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 985665013655 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 985665013656 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 985665013657 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 985665013658 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665013659 Coenzyme A binding pocket [chemical binding]; other site 985665013660 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 985665013661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665013662 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 985665013663 ATP-grasp domain; Region: ATP-grasp; pfam02222 985665013664 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665013665 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665013666 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 985665013667 Walker A/P-loop; other site 985665013668 ATP binding site [chemical binding]; other site 985665013669 Q-loop/lid; other site 985665013670 ABC transporter signature motif; other site 985665013671 Walker B; other site 985665013672 D-loop; other site 985665013673 H-loop/switch region; other site 985665013674 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665013675 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665013676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665013677 Walker A/P-loop; other site 985665013678 ATP binding site [chemical binding]; other site 985665013679 Q-loop/lid; other site 985665013680 ABC transporter signature motif; other site 985665013681 Walker B; other site 985665013682 D-loop; other site 985665013683 H-loop/switch region; other site 985665013684 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 985665013685 Dynamin family; Region: Dynamin_N; pfam00350 985665013686 G1 box; other site 985665013687 GTP/Mg2+ binding site [chemical binding]; other site 985665013688 G2 box; other site 985665013689 Switch I region; other site 985665013690 G3 box; other site 985665013691 Switch II region; other site 985665013692 G4 box; other site 985665013693 G5 box; other site 985665013694 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 985665013695 Dynamin family; Region: Dynamin_N; pfam00350 985665013696 G1 box; other site 985665013697 GTP/Mg2+ binding site [chemical binding]; other site 985665013698 G2 box; other site 985665013699 Switch I region; other site 985665013700 Dynamin family; Region: Dynamin_N; pfam00350 985665013701 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 985665013702 G3 box; other site 985665013703 Switch II region; other site 985665013704 GTP/Mg2+ binding site [chemical binding]; other site 985665013705 G4 box; other site 985665013706 G5 box; other site 985665013707 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 985665013708 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 985665013709 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 985665013710 minor groove reading motif; other site 985665013711 helix-hairpin-helix signature motif; other site 985665013712 substrate binding pocket [chemical binding]; other site 985665013713 active site 985665013714 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 985665013715 Sporulation and spore germination; Region: Germane; pfam10646 985665013716 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665013717 AMIN domain; Region: AMIN; pfam11741 985665013718 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 985665013719 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 985665013720 active site 985665013721 metal binding site [ion binding]; metal-binding site 985665013722 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665013723 AMIN domain; Region: AMIN; pfam11741 985665013724 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 985665013725 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 985665013726 active site 985665013727 metal binding site [ion binding]; metal-binding site 985665013728 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 985665013729 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 985665013730 substrate binding site [chemical binding]; other site 985665013731 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 985665013732 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 985665013733 substrate binding site [chemical binding]; other site 985665013734 ligand binding site [chemical binding]; other site 985665013735 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665013736 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 985665013737 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665013738 active site 985665013739 catalytic tetrad [active] 985665013740 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 985665013741 YmaF family; Region: YmaF; pfam12788 985665013742 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 985665013743 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 985665013744 [4Fe-4S] binding site [ion binding]; other site 985665013745 molybdopterin cofactor binding site; other site 985665013746 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 985665013747 molybdopterin cofactor binding site; other site 985665013748 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 985665013749 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 985665013750 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 985665013751 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 985665013752 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 985665013753 4Fe-4S binding domain; Region: Fer4; pfam00037 985665013754 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 985665013755 Aspartase; Region: Aspartase; cd01357 985665013756 active sites [active] 985665013757 tetramer interface [polypeptide binding]; other site 985665013758 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 985665013759 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 985665013760 G1 box; other site 985665013761 GTP/Mg2+ binding site [chemical binding]; other site 985665013762 Switch I region; other site 985665013763 G2 box; other site 985665013764 Switch II region; other site 985665013765 G3 box; other site 985665013766 G4 box; other site 985665013767 G5 box; other site 985665013768 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 985665013769 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 985665013770 FeS/SAM binding site; other site 985665013771 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 985665013772 biotin synthase; Provisional; Region: PRK07094 985665013773 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 985665013774 FeS/SAM binding site; other site 985665013775 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 985665013776 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 985665013777 Alkaline phosphatase homologues; Region: alkPPc; smart00098 985665013778 active site 985665013779 dimer interface [polypeptide binding]; other site 985665013780 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665013781 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665013782 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 985665013783 dimerization interface [polypeptide binding]; other site 985665013784 Predicted amidohydrolase [General function prediction only]; Region: COG0388 985665013785 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 985665013786 putative active site [active] 985665013787 catalytic triad [active] 985665013788 putative dimer interface [polypeptide binding]; other site 985665013789 transaminase; Reviewed; Region: PRK08068 985665013790 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 985665013791 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665013792 homodimer interface [polypeptide binding]; other site 985665013793 catalytic residue [active] 985665013794 potential frameshift: common BLAST hit: gi|308069447|ref|YP_003871052.1| glutamate 5-kinase (gamma-glutamyl kinase) 985665013795 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 985665013796 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 985665013797 putative catalytic cysteine [active] 985665013798 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 985665013799 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 985665013800 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 985665013801 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 985665013802 dimer interface [polypeptide binding]; other site 985665013803 active site 985665013804 catalytic residue [active] 985665013805 metal binding site [ion binding]; metal-binding site 985665013806 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 985665013807 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 985665013808 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 985665013809 intersubunit interface [polypeptide binding]; other site 985665013810 active site 985665013811 Zn2+ binding site [ion binding]; other site 985665013812 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 985665013813 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 985665013814 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665013815 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 985665013816 DNA binding residues [nucleotide binding] 985665013817 Helix-turn-helix domain; Region: HTH_36; pfam13730 985665013818 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 985665013819 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 985665013820 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 985665013821 putative dimer interface [polypeptide binding]; other site 985665013822 putative anticodon binding site; other site 985665013823 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 985665013824 homodimer interface [polypeptide binding]; other site 985665013825 motif 1; other site 985665013826 motif 2; other site 985665013827 active site 985665013828 motif 3; other site 985665013829 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 985665013830 propionate/acetate kinase; Provisional; Region: PRK12379 985665013831 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 985665013832 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 985665013833 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 985665013834 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 985665013835 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 985665013836 Walker A motif; other site 985665013837 ATP binding site [chemical binding]; other site 985665013838 Walker B motif; other site 985665013839 arginine finger; other site 985665013840 Peptidase family M41; Region: Peptidase_M41; pfam01434 985665013841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665013842 NAD(P) binding site [chemical binding]; other site 985665013843 active site 985665013844 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 985665013845 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 985665013846 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 985665013847 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 985665013848 active site 985665013849 putative substrate binding pocket [chemical binding]; other site 985665013850 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 985665013851 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 985665013852 CoA binding domain; Region: CoA_binding; pfam02629 985665013853 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 985665013854 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 985665013855 active site 985665013856 catalytic site [active] 985665013857 substrate binding site [chemical binding]; other site 985665013858 DEAD/DEAH box helicase; Region: DEAD; pfam00270 985665013859 ATP binding site [chemical binding]; other site 985665013860 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 985665013861 putative Mg++ binding site [ion binding]; other site 985665013862 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 985665013863 TPR repeat; Region: TPR_11; pfam13414 985665013864 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 985665013865 TPR motif; other site 985665013866 binding surface 985665013867 Tetratricopeptide repeat; Region: TPR_12; pfam13424 985665013868 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 985665013869 tetramerization interface [polypeptide binding]; other site 985665013870 active site 985665013871 pantoate--beta-alanine ligase; Region: panC; TIGR00018 985665013872 Pantoate-beta-alanine ligase; Region: PanC; cd00560 985665013873 active site 985665013874 ATP-binding site [chemical binding]; other site 985665013875 pantoate-binding site; other site 985665013876 HXXH motif; other site 985665013877 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 985665013878 oligomerization interface [polypeptide binding]; other site 985665013879 active site 985665013880 metal binding site [ion binding]; metal-binding site 985665013881 Biotin operon repressor [Transcription]; Region: BirA; COG1654 985665013882 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 985665013883 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 985665013884 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 985665013885 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 985665013886 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 985665013887 active site 985665013888 NTP binding site [chemical binding]; other site 985665013889 metal binding triad [ion binding]; metal-binding site 985665013890 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 985665013891 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 985665013892 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 985665013893 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 985665013894 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 985665013895 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 985665013896 active site 985665013897 dimer interfaces [polypeptide binding]; other site 985665013898 catalytic residues [active] 985665013899 dihydrodipicolinate reductase; Provisional; Region: PRK00048 985665013900 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 985665013901 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 985665013902 TPR repeat; Region: TPR_11; pfam13414 985665013903 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 985665013904 binding surface 985665013905 TPR motif; other site 985665013906 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 985665013907 TPR motif; other site 985665013908 binding surface 985665013909 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 985665013910 homodimer interface [polypeptide binding]; other site 985665013911 metal binding site [ion binding]; metal-binding site 985665013912 Uncharacterized conserved protein [Function unknown]; Region: COG1284 985665013913 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 985665013914 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 985665013915 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 985665013916 Sporulation protein YpjB (SpoYpjB); Region: Spore_YpjB; cl09800 985665013917 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 985665013918 IDEAL domain; Region: IDEAL; cl07452 985665013919 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 985665013920 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 985665013921 trimer interface [polypeptide binding]; other site 985665013922 putative metal binding site [ion binding]; other site 985665013923 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 985665013924 catalytic core [active] 985665013925 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 985665013926 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665013927 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 985665013928 DNA binding residues [nucleotide binding] 985665013929 prephenate dehydrogenase; Validated; Region: PRK08507 985665013930 prephenate dehydrogenase; Validated; Region: PRK06545 985665013931 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 985665013932 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 985665013933 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 985665013934 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665013935 homodimer interface [polypeptide binding]; other site 985665013936 catalytic residue [active] 985665013937 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 985665013938 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 985665013939 substrate binding site [chemical binding]; other site 985665013940 active site 985665013941 catalytic residues [active] 985665013942 heterodimer interface [polypeptide binding]; other site 985665013943 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 985665013944 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 985665013945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665013946 catalytic residue [active] 985665013947 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 985665013948 active site 985665013949 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 985665013950 active site 985665013951 ribulose/triose binding site [chemical binding]; other site 985665013952 phosphate binding site [ion binding]; other site 985665013953 substrate (anthranilate) binding pocket [chemical binding]; other site 985665013954 product (indole) binding pocket [chemical binding]; other site 985665013955 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 985665013956 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 985665013957 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 985665013958 anthranilate synthase component I; Provisional; Region: PRK13570 985665013959 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 985665013960 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 985665013961 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 985665013962 homotrimer interaction site [polypeptide binding]; other site 985665013963 active site 985665013964 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 985665013965 active site 985665013966 dimer interface [polypeptide binding]; other site 985665013967 metal binding site [ion binding]; metal-binding site 985665013968 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 985665013969 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 985665013970 Tetramer interface [polypeptide binding]; other site 985665013971 active site 985665013972 FMN-binding site [chemical binding]; other site 985665013973 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 985665013974 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 985665013975 hypothetical protein; Provisional; Region: PRK10593 985665013976 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 985665013977 S-adenosylmethionine binding site [chemical binding]; other site 985665013978 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 985665013979 active site 985665013980 multimer interface [polypeptide binding]; other site 985665013981 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 985665013982 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 985665013983 substrate binding pocket [chemical binding]; other site 985665013984 chain length determination region; other site 985665013985 substrate-Mg2+ binding site; other site 985665013986 catalytic residues [active] 985665013987 aspartate-rich region 1; other site 985665013988 active site lid residues [active] 985665013989 aspartate-rich region 2; other site 985665013990 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 985665013991 aromatic acid decarboxylase; Validated; Region: PRK05920 985665013992 Flavoprotein; Region: Flavoprotein; pfam02441 985665013993 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 985665013994 UbiA prenyltransferase family; Region: UbiA; pfam01040 985665013995 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 985665013996 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 985665013997 S-adenosylmethionine binding site [chemical binding]; other site 985665013998 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 985665013999 Tryptophan RNA-binding attenuator protein; Region: TrpBP; cl03437 985665014000 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 985665014001 IHF - DNA interface [nucleotide binding]; other site 985665014002 IHF dimer interface [polypeptide binding]; other site 985665014003 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 985665014004 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 985665014005 TM-ABC transporter signature motif; other site 985665014006 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 985665014007 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 985665014008 Walker A/P-loop; other site 985665014009 ATP binding site [chemical binding]; other site 985665014010 Q-loop/lid; other site 985665014011 ABC transporter signature motif; other site 985665014012 Walker B; other site 985665014013 D-loop; other site 985665014014 H-loop/switch region; other site 985665014015 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 985665014016 Methylthioribose-binding protein-like of 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_methylthioribose_binding_like; cd06305 985665014017 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 985665014018 putative ligand binding site [chemical binding]; other site 985665014019 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 985665014020 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR4; cd08270 985665014021 putative NAD(P) binding site [chemical binding]; other site 985665014022 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 985665014023 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 985665014024 G1 box; other site 985665014025 GTP/Mg2+ binding site [chemical binding]; other site 985665014026 G2 box; other site 985665014027 Switch I region; other site 985665014028 G3 box; other site 985665014029 Switch II region; other site 985665014030 G4 box; other site 985665014031 G5 box; other site 985665014032 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 985665014033 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 985665014034 catalytic loop [active] 985665014035 iron binding site [ion binding]; other site 985665014036 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 985665014037 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 985665014038 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 985665014039 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 985665014040 membrane protein; Provisional; Region: PRK14405 985665014041 GTP-binding protein Der; Reviewed; Region: PRK00093 985665014042 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 985665014043 G1 box; other site 985665014044 GTP/Mg2+ binding site [chemical binding]; other site 985665014045 Switch I region; other site 985665014046 G2 box; other site 985665014047 Switch II region; other site 985665014048 G3 box; other site 985665014049 G4 box; other site 985665014050 G5 box; other site 985665014051 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 985665014052 G1 box; other site 985665014053 GTP/Mg2+ binding site [chemical binding]; other site 985665014054 Switch I region; other site 985665014055 G2 box; other site 985665014056 G3 box; other site 985665014057 Switch II region; other site 985665014058 G4 box; other site 985665014059 G5 box; other site 985665014060 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 985665014061 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 985665014062 RNA binding site [nucleotide binding]; other site 985665014063 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 985665014064 RNA binding site [nucleotide binding]; other site 985665014065 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 985665014066 RNA binding site [nucleotide binding]; other site 985665014067 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 985665014068 RNA binding site [nucleotide binding]; other site 985665014069 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 985665014070 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 985665014071 putative acyl-acceptor binding pocket; other site 985665014072 cytidylate kinase; Provisional; Region: cmk; PRK00023 985665014073 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 985665014074 CMP-binding site; other site 985665014075 The sites determining sugar specificity; other site 985665014076 Flagellar protein YcgR; Region: YcgR_2; pfam12945 985665014077 PilZ domain; Region: PilZ; pfam07238 985665014078 germination protein YpeB; Region: spore_YpeB; TIGR02889 985665014079 Protease prsW family; Region: PrsW-protease; pfam13367 985665014080 adaptor protein; Provisional; Region: PRK02899 985665014081 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 985665014082 NodB motif; other site 985665014083 active site 985665014084 catalytic site [active] 985665014085 metal binding site [ion binding]; metal-binding site 985665014086 CAAX protease self-immunity; Region: Abi; pfam02517 985665014087 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 985665014088 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 985665014089 ligand binding site [chemical binding]; other site 985665014090 NAD binding site [chemical binding]; other site 985665014091 dimerization interface [polypeptide binding]; other site 985665014092 catalytic site [active] 985665014093 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 985665014094 putative L-serine binding site [chemical binding]; other site 985665014095 potential frameshift: common BLAST hit: gi|308069542|ref|YP_003871147.1| signal transduction histidine kinase 985665014096 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665014097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665014098 active site 985665014099 phosphorylation site [posttranslational modification] 985665014100 intermolecular recognition site; other site 985665014101 dimerization interface [polypeptide binding]; other site 985665014102 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 985665014103 DNA binding site [nucleotide binding] 985665014104 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 985665014105 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 985665014106 RNA binding surface [nucleotide binding]; other site 985665014107 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 985665014108 active site 985665014109 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 985665014110 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 985665014111 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 985665014112 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 985665014113 transglutaminase; Provisional; Region: tgl; PRK03187 985665014114 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 985665014115 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985665014116 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 985665014117 metal binding site [ion binding]; metal-binding site 985665014118 dimer interface [polypeptide binding]; other site 985665014119 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 985665014120 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 985665014121 dimer interface [polypeptide binding]; other site 985665014122 conserved gate region; other site 985665014123 putative PBP binding loops; other site 985665014124 ABC-ATPase subunit interface; other site 985665014125 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 985665014126 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 985665014127 dimer interface [polypeptide binding]; other site 985665014128 conserved gate region; other site 985665014129 putative PBP binding loops; other site 985665014130 ABC-ATPase subunit interface; other site 985665014131 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 985665014132 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665014133 Walker A/P-loop; other site 985665014134 ATP binding site [chemical binding]; other site 985665014135 Q-loop/lid; other site 985665014136 ABC transporter signature motif; other site 985665014137 Walker B; other site 985665014138 D-loop; other site 985665014139 H-loop/switch region; other site 985665014140 TOBE domain; Region: TOBE_2; pfam08402 985665014141 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 985665014142 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 985665014143 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 985665014144 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 985665014145 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 985665014146 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 985665014147 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 985665014148 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 985665014149 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 985665014150 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 985665014151 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 985665014152 homopentamer interface [polypeptide binding]; other site 985665014153 active site 985665014154 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 985665014155 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 985665014156 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 985665014157 Lumazine binding domain; Region: Lum_binding; pfam00677 985665014158 Lumazine binding domain; Region: Lum_binding; pfam00677 985665014159 IDEAL domain; Region: IDEAL; pfam08858 985665014160 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 985665014161 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 985665014162 dimer interface [polypeptide binding]; other site 985665014163 PYR/PP interface [polypeptide binding]; other site 985665014164 TPP binding site [chemical binding]; other site 985665014165 substrate binding site [chemical binding]; other site 985665014166 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985665014167 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 985665014168 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 985665014169 TPP-binding site [chemical binding]; other site 985665014170 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 985665014171 pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional; Region: PRK14028 985665014172 4Fe-4S binding domain; Region: Fer4; pfam00037 985665014173 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 985665014174 active site 985665014175 diaminopimelate decarboxylase; Region: lysA; TIGR01048 985665014176 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 985665014177 active site 985665014178 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985665014179 substrate binding site [chemical binding]; other site 985665014180 catalytic residues [active] 985665014181 dimer interface [polypeptide binding]; other site 985665014182 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 985665014183 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 985665014184 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 985665014185 sporulation sigma factor SigF; Validated; Region: PRK05572 985665014186 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665014187 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 985665014188 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 985665014189 DNA binding residues [nucleotide binding] 985665014190 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 985665014191 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665014192 ATP binding site [chemical binding]; other site 985665014193 Mg2+ binding site [ion binding]; other site 985665014194 G-X-G motif; other site 985665014195 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 985665014196 anti sigma factor interaction site; other site 985665014197 regulatory phosphorylation site [posttranslational modification]; other site 985665014198 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 985665014199 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 985665014200 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 985665014201 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 985665014202 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 985665014203 purine nucleoside phosphorylase; Provisional; Region: PRK08202 985665014204 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 985665014205 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 985665014206 active site 985665014207 Int/Topo IB signature motif; other site 985665014208 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 985665014209 ferric uptake regulator; Provisional; Region: fur; PRK09462 985665014210 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 985665014211 metal binding site 2 [ion binding]; metal-binding site 985665014212 putative DNA binding helix; other site 985665014213 metal binding site 1 [ion binding]; metal-binding site 985665014214 dimer interface [polypeptide binding]; other site 985665014215 structural Zn2+ binding site [ion binding]; other site 985665014216 Integral membrane protein DUF95; Region: DUF95; cl00572 985665014217 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 985665014218 PHP-associated; Region: PHP_C; pfam13263 985665014219 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 985665014220 iron binding site [ion binding]; other site 985665014221 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 985665014222 dimer interface [polypeptide binding]; other site 985665014223 ADP-ribose binding site [chemical binding]; other site 985665014224 active site 985665014225 nudix motif; other site 985665014226 metal binding site [ion binding]; metal-binding site 985665014227 Protein of unknown function (DUF3936); Region: DUF3936; pfam13072 985665014228 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 985665014229 peptidase T-like protein; Region: PepT-like; TIGR01883 985665014230 metal binding site [ion binding]; metal-binding site 985665014231 putative dimer interface [polypeptide binding]; other site 985665014232 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 985665014233 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 985665014234 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 985665014235 E3 interaction surface; other site 985665014236 lipoyl attachment site [posttranslational modification]; other site 985665014237 e3 binding domain; Region: E3_binding; pfam02817 985665014238 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 985665014239 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 985665014240 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 985665014241 alpha subunit interface [polypeptide binding]; other site 985665014242 TPP binding site [chemical binding]; other site 985665014243 heterodimer interface [polypeptide binding]; other site 985665014244 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985665014245 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 985665014246 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 985665014247 tetramer interface [polypeptide binding]; other site 985665014248 TPP-binding site [chemical binding]; other site 985665014249 heterodimer interface [polypeptide binding]; other site 985665014250 phosphorylation loop region [posttranslational modification] 985665014251 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 985665014252 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 985665014253 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665014254 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 985665014255 thymidine kinase; Provisional; Region: PRK04296 985665014256 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 985665014257 SpoOM protein; Region: Spo0M; pfam07070 985665014258 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 985665014259 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 985665014260 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 985665014261 dimerization interface [polypeptide binding]; other site 985665014262 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665014263 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665014264 dimer interface [polypeptide binding]; other site 985665014265 putative CheW interface [polypeptide binding]; other site 985665014266 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 985665014267 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 985665014268 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 985665014269 active site 985665014270 DNA binding site [nucleotide binding] 985665014271 Int/Topo IB signature motif; other site 985665014272 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 985665014273 DNA-binding interface [nucleotide binding]; DNA binding site 985665014274 Helix-turn-helix of insertion element transposase; Region: HTH_Tnp_1_2; pfam13022 985665014275 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 985665014276 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 985665014277 Phage XkdN-like protein; Region: XkdN; pfam08890 985665014278 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 985665014279 non-specific DNA binding site [nucleotide binding]; other site 985665014280 salt bridge; other site 985665014281 sequence-specific DNA binding site [nucleotide binding]; other site 985665014282 Helix-turn-helix domain; Region: HTH_36; pfam13730 985665014283 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 985665014284 non-specific DNA binding site [nucleotide binding]; other site 985665014285 salt bridge; other site 985665014286 sequence-specific DNA binding site [nucleotide binding]; other site 985665014287 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 985665014288 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 985665014289 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 985665014290 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 985665014291 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 985665014292 active site 985665014293 DNA binding site [nucleotide binding] 985665014294 Int/Topo IB signature motif; other site 985665014295 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 985665014296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665014297 active site 985665014298 phosphorylation site [posttranslational modification] 985665014299 intermolecular recognition site; other site 985665014300 dimerization interface [polypeptide binding]; other site 985665014301 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 985665014302 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 985665014303 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 985665014304 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 985665014305 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 985665014306 Walker A/P-loop; other site 985665014307 ATP binding site [chemical binding]; other site 985665014308 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 985665014309 ABC transporter signature motif; other site 985665014310 Walker B; other site 985665014311 D-loop; other site 985665014312 H-loop/switch region; other site 985665014313 arginine repressor; Provisional; Region: PRK04280 985665014314 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 985665014315 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 985665014316 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 985665014317 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 985665014318 RNA binding surface [nucleotide binding]; other site 985665014319 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 985665014320 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 985665014321 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 985665014322 TPP-binding site; other site 985665014323 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 985665014324 PYR/PP interface [polypeptide binding]; other site 985665014325 dimer interface [polypeptide binding]; other site 985665014326 TPP binding site [chemical binding]; other site 985665014327 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 985665014328 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 985665014329 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 985665014330 substrate binding pocket [chemical binding]; other site 985665014331 chain length determination region; other site 985665014332 substrate-Mg2+ binding site; other site 985665014333 catalytic residues [active] 985665014334 aspartate-rich region 1; other site 985665014335 active site lid residues [active] 985665014336 aspartate-rich region 2; other site 985665014337 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 985665014338 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 985665014339 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 985665014340 generic binding surface II; other site 985665014341 generic binding surface I; other site 985665014342 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 985665014343 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 985665014344 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 985665014345 homodimer interface [polypeptide binding]; other site 985665014346 NADP binding site [chemical binding]; other site 985665014347 substrate binding site [chemical binding]; other site 985665014348 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 985665014349 putative RNA binding site [nucleotide binding]; other site 985665014350 Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031 985665014351 Asp23 family; Region: Asp23; cl00574 985665014352 Asp23 family; Region: Asp23; pfam03780 985665014353 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 985665014354 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985665014355 ATP-grasp domain; Region: ATP-grasp_4; cl17255 985665014356 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 985665014357 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 985665014358 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 985665014359 carboxyltransferase (CT) interaction site; other site 985665014360 biotinylation site [posttranslational modification]; other site 985665014361 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 985665014362 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 985665014363 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 985665014364 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 985665014365 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 985665014366 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 985665014367 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 985665014368 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 985665014369 NTPase; Region: NTPase_1; cl17478 985665014370 aspartate kinase; Reviewed; Region: PRK06635 985665014371 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 985665014372 putative nucleotide binding site [chemical binding]; other site 985665014373 putative catalytic residues [active] 985665014374 putative Mg ion binding site [ion binding]; other site 985665014375 putative aspartate binding site [chemical binding]; other site 985665014376 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 985665014377 putative allosteric regulatory site; other site 985665014378 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 985665014379 elongation factor P; Validated; Region: PRK00529 985665014380 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 985665014381 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 985665014382 RNA binding site [nucleotide binding]; other site 985665014383 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 985665014384 RNA binding site [nucleotide binding]; other site 985665014385 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 985665014386 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 985665014387 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 985665014388 active site 985665014389 Conserved membrane protein YqhR; Region: YqhR; pfam11085 985665014390 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 985665014391 Oxygen tolerance; Region: BatD; pfam13584 985665014392 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 985665014393 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 985665014394 active site 985665014395 nucleophile elbow; other site 985665014396 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665014397 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 985665014398 manganese transport transcriptional regulator; Provisional; Region: PRK03902 985665014399 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 985665014400 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 985665014401 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 985665014402 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 985665014403 FeS/SAM binding site; other site 985665014404 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 985665014405 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 985665014406 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 985665014407 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 985665014408 active site 985665014409 HIGH motif; other site 985665014410 KMSKS motif; other site 985665014411 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 985665014412 tRNA binding surface [nucleotide binding]; other site 985665014413 anticodon binding site; other site 985665014414 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 985665014415 dimer interface [polypeptide binding]; other site 985665014416 putative tRNA-binding site [nucleotide binding]; other site 985665014417 Haemolytic domain; Region: Haemolytic; pfam01809 985665014418 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 985665014419 metal binding site 2 [ion binding]; metal-binding site 985665014420 putative DNA binding helix; other site 985665014421 metal binding site 1 [ion binding]; metal-binding site 985665014422 dimer interface [polypeptide binding]; other site 985665014423 structural Zn2+ binding site [ion binding]; other site 985665014424 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665014425 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 985665014426 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 985665014427 FeS/SAM binding site; other site 985665014428 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 985665014429 Pyruvate formate lyase 1; Region: PFL1; cd01678 985665014430 coenzyme A binding site [chemical binding]; other site 985665014431 active site 985665014432 catalytic residues [active] 985665014433 glycine loop; other site 985665014434 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 985665014435 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 985665014436 putative catalytic cysteine [active] 985665014437 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 985665014438 putative active site [active] 985665014439 metal binding site [ion binding]; metal-binding site 985665014440 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 985665014441 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 985665014442 ligand binding site [chemical binding]; other site 985665014443 flexible hinge region; other site 985665014444 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 985665014445 non-specific DNA interactions [nucleotide binding]; other site 985665014446 DNA binding site [nucleotide binding] 985665014447 sequence specific DNA binding site [nucleotide binding]; other site 985665014448 putative cAMP binding site [chemical binding]; other site 985665014449 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 985665014450 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 985665014451 putative active site [active] 985665014452 metal binding site [ion binding]; metal-binding site 985665014453 flagellar operon protein TIGR03826; Region: YvyF 985665014454 Predicted transcriptional regulators [Transcription]; Region: COG1733 985665014455 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 985665014456 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 985665014457 conserved cys residue [active] 985665014458 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 985665014459 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 985665014460 DNA interaction; other site 985665014461 Metal-binding active site; metal-binding site 985665014462 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 985665014463 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665014464 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665014465 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 985665014466 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 985665014467 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665014468 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665014469 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665014470 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665014471 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665014472 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665014473 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 985665014474 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 985665014475 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 985665014476 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 985665014477 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 985665014478 Uncharacterized conserved protein [Function unknown]; Region: COG0398 985665014479 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 985665014480 methionine sulfoxide reductase A; Provisional; Region: PRK14054 985665014481 methionine sulfoxide reductase B; Provisional; Region: PRK00222 985665014482 SelR domain; Region: SelR; pfam01641 985665014483 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 985665014484 Uncharacterized conserved protein [Function unknown]; Region: COG1284 985665014485 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 985665014486 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 985665014487 EamA-like transporter family; Region: EamA; pfam00892 985665014488 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 985665014489 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 985665014490 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 985665014491 active site 985665014492 putative substrate binding pocket [chemical binding]; other site 985665014493 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 985665014494 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 985665014495 DNA binding residues [nucleotide binding] 985665014496 dimer interface [polypeptide binding]; other site 985665014497 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 985665014498 S-adenosylmethionine binding site [chemical binding]; other site 985665014499 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 985665014500 Spore germination protein; Region: Spore_permease; cl17796 985665014501 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 985665014502 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 985665014503 Transglycosylase; Region: Transgly; pfam00912 985665014504 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 985665014505 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 985665014506 DNA polymerase IV; Reviewed; Region: PRK03103 985665014507 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 985665014508 active site 985665014509 DNA binding site [nucleotide binding] 985665014510 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 985665014511 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 985665014512 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 985665014513 generic binding surface II; other site 985665014514 ssDNA binding site; other site 985665014515 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 985665014516 ATP binding site [chemical binding]; other site 985665014517 putative Mg++ binding site [ion binding]; other site 985665014518 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 985665014519 nucleotide binding region [chemical binding]; other site 985665014520 ATP-binding site [chemical binding]; other site 985665014521 EDD domain protein, DegV family; Region: DegV; TIGR00762 985665014522 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 985665014523 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 985665014524 DAK2 domain; Region: Dak2; pfam02734 985665014525 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 985665014526 Stage V sporulation protein family; Region: SpoV; cl15455 985665014527 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 985665014528 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 985665014529 substrate binding site [chemical binding]; other site 985665014530 hexamer interface [polypeptide binding]; other site 985665014531 metal binding site [ion binding]; metal-binding site 985665014532 GTPase RsgA; Reviewed; Region: PRK00098 985665014533 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 985665014534 RNA binding site [nucleotide binding]; other site 985665014535 homodimer interface [polypeptide binding]; other site 985665014536 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 985665014537 GTPase/Zn-binding domain interface [polypeptide binding]; other site 985665014538 GTP/Mg2+ binding site [chemical binding]; other site 985665014539 G4 box; other site 985665014540 G5 box; other site 985665014541 G1 box; other site 985665014542 Switch I region; other site 985665014543 G2 box; other site 985665014544 G3 box; other site 985665014545 Switch II region; other site 985665014546 Catalytic domain of Protein Kinases; Region: PKc; cd00180 985665014547 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 985665014548 active site 985665014549 ATP binding site [chemical binding]; other site 985665014550 substrate binding site [chemical binding]; other site 985665014551 activation loop (A-loop); other site 985665014552 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 985665014553 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 985665014554 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 985665014555 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 985665014556 active site 985665014557 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 985665014558 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 985665014559 FeS/SAM binding site; other site 985665014560 16S rRNA methyltransferase B; Provisional; Region: PRK14902 985665014561 NusB family; Region: NusB; pfam01029 985665014562 putative RNA binding site [nucleotide binding]; other site 985665014563 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 985665014564 S-adenosylmethionine binding site [chemical binding]; other site 985665014565 potential frameshift: common BLAST hit: gi|310642739|ref|YP_003947497.1| methionyl-tRNA formyltransferase 985665014566 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 985665014567 active site 985665014568 catalytic residues [active] 985665014569 metal binding site [ion binding]; metal-binding site 985665014570 primosomal protein N' Region: priA; TIGR00595 985665014571 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 985665014572 ATP binding site [chemical binding]; other site 985665014573 putative Mg++ binding site [ion binding]; other site 985665014574 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 985665014575 nucleotide binding region [chemical binding]; other site 985665014576 ATP-binding site [chemical binding]; other site 985665014577 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 985665014578 Flavoprotein; Region: Flavoprotein; pfam02441 985665014579 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 985665014580 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 985665014581 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 985665014582 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 985665014583 catalytic site [active] 985665014584 G-X2-G-X-G-K; other site 985665014585 hypothetical protein; Provisional; Region: PRK04323 985665014586 hypothetical protein; Provisional; Region: PRK11820 985665014587 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 985665014588 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 985665014589 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 985665014590 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 985665014591 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 985665014592 FAD binding site [chemical binding]; other site 985665014593 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 985665014594 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 985665014595 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 985665014596 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 985665014597 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 985665014598 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 985665014599 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 985665014600 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 985665014601 motif II; other site 985665014602 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 985665014603 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 985665014604 Domain of unknown function (DUF814); Region: DUF814; pfam05670 985665014605 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 985665014606 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 985665014607 active site 985665014608 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 985665014609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665014610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665014611 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 985665014612 putative dimerization interface [polypeptide binding]; other site 985665014613 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 985665014614 Protein of unknown function (DUF964); Region: DUF964; pfam06133 985665014615 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 985665014616 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 985665014617 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 985665014618 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 985665014619 ATP binding site [chemical binding]; other site 985665014620 putative Mg++ binding site [ion binding]; other site 985665014621 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 985665014622 nucleotide binding region [chemical binding]; other site 985665014623 ATP-binding site [chemical binding]; other site 985665014624 FOG: CBS domain [General function prediction only]; Region: COG0517 985665014625 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 985665014626 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985665014627 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 985665014628 metal binding site [ion binding]; metal-binding site 985665014629 dimer interface [polypeptide binding]; other site 985665014630 cell division protein FtsW; Region: ftsW; TIGR02614 985665014631 Asp23 family; Region: Asp23; pfam03780 985665014632 calcium/proton exchanger (cax); Region: cax; TIGR00378 985665014633 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 985665014634 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 985665014635 hypothetical protein; Provisional; Region: PRK13666 985665014636 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 985665014637 regulatory protein interface [polypeptide binding]; other site 985665014638 regulatory phosphorylation site [posttranslational modification]; other site 985665014639 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 985665014640 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 985665014641 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 985665014642 GAF domain; Region: GAF_3; pfam13492 985665014643 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 985665014644 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 985665014645 metal binding site [ion binding]; metal-binding site 985665014646 active site 985665014647 I-site; other site 985665014648 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 985665014649 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 985665014650 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 985665014651 RNA binding surface [nucleotide binding]; other site 985665014652 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665014653 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665014654 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665014655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 985665014656 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 985665014657 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 985665014658 active site 985665014659 HIGH motif; other site 985665014660 dimer interface [polypeptide binding]; other site 985665014661 KMSKS motif; other site 985665014662 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 985665014663 RNA binding surface [nucleotide binding]; other site 985665014664 Transglycosylase; Region: Transgly; pfam00912 985665014665 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 985665014666 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 985665014667 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 985665014668 Interdomain contacts; other site 985665014669 Cytokine receptor motif; other site 985665014670 acetyl-CoA synthetase; Provisional; Region: PRK04319 985665014671 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 985665014672 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 985665014673 active site 985665014674 acyl-activating enzyme (AAE) consensus motif; other site 985665014675 putative CoA binding site [chemical binding]; other site 985665014676 AMP binding site [chemical binding]; other site 985665014677 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665014678 Coenzyme A binding pocket [chemical binding]; other site 985665014679 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 985665014680 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 985665014681 catabolite control protein A; Region: ccpA; TIGR01481 985665014682 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665014683 DNA binding site [nucleotide binding] 985665014684 domain linker motif; other site 985665014685 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 985665014686 dimerization interface [polypeptide binding]; other site 985665014687 effector binding site; other site 985665014688 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 985665014689 intracellular protease, PfpI family; Region: PfpI; TIGR01382 985665014690 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 985665014691 proposed catalytic triad [active] 985665014692 conserved cys residue [active] 985665014693 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 985665014694 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 985665014695 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 985665014696 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 985665014697 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 985665014698 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665014699 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 985665014700 active site turn [active] 985665014701 phosphorylation site [posttranslational modification] 985665014702 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985665014703 HPr interaction site; other site 985665014704 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665014705 active site 985665014706 phosphorylation site [posttranslational modification] 985665014707 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 985665014708 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 985665014709 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 985665014710 hinge; other site 985665014711 active site 985665014712 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 985665014713 active site residue [active] 985665014714 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 985665014715 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 985665014716 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 985665014717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 985665014718 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 985665014719 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665014720 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665014721 putative substrate translocation pore; other site 985665014722 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 985665014723 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 985665014724 homodimer interface [polypeptide binding]; other site 985665014725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665014726 catalytic residue [active] 985665014727 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 985665014728 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 985665014729 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 985665014730 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 985665014731 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 985665014732 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 985665014733 [2Fe-2S] cluster binding site [ion binding]; other site 985665014734 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 985665014735 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665014736 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 985665014737 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 985665014738 ANTAR domain; Region: ANTAR; pfam03861 985665014739 Anthranilate phosphoribosyltransferase [Amino acid transport and metabolism]; Region: TrpD; COG0547 985665014740 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 985665014741 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 985665014742 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 985665014743 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 985665014744 [4Fe-4S] binding site [ion binding]; other site 985665014745 molybdopterin cofactor binding site; other site 985665014746 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 985665014747 molybdopterin cofactor binding site; other site 985665014748 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 985665014749 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 985665014750 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 985665014751 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 985665014752 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665014753 putative substrate translocation pore; other site 985665014754 malate dehydrogenase; Provisional; Region: PRK13529 985665014755 Malic enzyme, N-terminal domain; Region: malic; pfam00390 985665014756 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 985665014757 NAD(P) binding site [chemical binding]; other site 985665014758 Membrane transport protein; Region: Mem_trans; cl09117 985665014759 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 985665014760 dimerization interface [polypeptide binding]; other site 985665014761 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665014762 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665014763 dimer interface [polypeptide binding]; other site 985665014764 putative CheW interface [polypeptide binding]; other site 985665014765 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665014766 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 985665014767 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 985665014768 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 985665014769 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 985665014770 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 985665014771 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665014772 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 985665014773 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 985665014774 ABC-ATPase subunit interface; other site 985665014775 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665014776 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 985665014777 dimer interface [polypeptide binding]; other site 985665014778 conserved gate region; other site 985665014779 putative PBP binding loops; other site 985665014780 ABC-ATPase subunit interface; other site 985665014781 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665014782 Response regulator receiver domain; Region: Response_reg; pfam00072 985665014783 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665014784 active site 985665014785 phosphorylation site [posttranslational modification] 985665014786 intermolecular recognition site; other site 985665014787 dimerization interface [polypeptide binding]; other site 985665014788 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665014789 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665014790 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665014791 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 985665014792 dimerization interface [polypeptide binding]; other site 985665014793 Histidine kinase; Region: His_kinase; pfam06580 985665014794 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665014795 ATP binding site [chemical binding]; other site 985665014796 Mg2+ binding site [ion binding]; other site 985665014797 G-X-G motif; other site 985665014798 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 985665014799 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 985665014800 ligand binding site [chemical binding]; other site 985665014801 active site 985665014802 UGI interface [polypeptide binding]; other site 985665014803 catalytic site [active] 985665014804 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665014805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665014806 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 985665014807 dimerization interface [polypeptide binding]; other site 985665014808 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 985665014809 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665014810 putative substrate translocation pore; other site 985665014811 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 985665014812 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665014813 DNA-binding site [nucleotide binding]; DNA binding site 985665014814 UTRA domain; Region: UTRA; pfam07702 985665014815 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 985665014816 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 985665014817 metal binding site [ion binding]; metal-binding site 985665014818 substrate binding pocket [chemical binding]; other site 985665014819 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 985665014820 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 985665014821 active site turn [active] 985665014822 phosphorylation site [posttranslational modification] 985665014823 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665014824 hypothetical protein; Provisional; Region: PRK02237 985665014825 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 985665014826 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 985665014827 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 985665014828 dimer interface [polypeptide binding]; other site 985665014829 active site 985665014830 metal binding site [ion binding]; metal-binding site 985665014831 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 985665014832 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 985665014833 Coenzyme A binding pocket [chemical binding]; other site 985665014834 Excalibur calcium-binding domain; Region: Excalibur; smart00894 985665014835 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 985665014836 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 985665014837 dimer interface [polypeptide binding]; other site 985665014838 active site 985665014839 CoA binding pocket [chemical binding]; other site 985665014840 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 985665014841 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 985665014842 Cupin; Region: Cupin_1; smart00835 985665014843 Sm and related proteins; Region: Sm_like; cl00259 985665014844 Protein of unknown function (DUF2642); Region: DUF2642; pfam10842 985665014845 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; cl10448 985665014846 Predicted membrane protein [Function unknown]; Region: COG2855 985665014847 Transcriptional regulator [Transcription]; Region: LysR; COG0583 985665014848 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 985665014849 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 985665014850 putative dimerization interface [polypeptide binding]; other site 985665014851 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 985665014852 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 985665014853 inhibitor binding site; inhibition site 985665014854 active site 985665014855 Pectinesterase; Region: Pectinesterase; pfam01095 985665014856 putative pectinesterase; Region: PLN02432; cl01911 985665014857 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 985665014858 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 985665014859 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 985665014860 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665014861 Predicted integral membrane protein [Function unknown]; Region: COG5578 985665014862 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665014863 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 985665014864 dimer interface [polypeptide binding]; other site 985665014865 conserved gate region; other site 985665014866 ABC-ATPase subunit interface; other site 985665014867 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665014868 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 985665014869 dimer interface [polypeptide binding]; other site 985665014870 conserved gate region; other site 985665014871 putative PBP binding loops; other site 985665014872 ABC-ATPase subunit interface; other site 985665014873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665014874 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665014875 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665014876 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 985665014877 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 985665014878 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 985665014879 active site 985665014880 catalytic triad [active] 985665014881 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985665014882 active site 985665014883 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 985665014884 active site 985665014885 dimer interface [polypeptide binding]; other site 985665014886 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 985665014887 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985665014888 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 985665014889 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 985665014890 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 985665014891 ATP-grasp domain; Region: ATP-grasp_4; cl17255 985665014892 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 985665014893 IMP binding site; other site 985665014894 dimer interface [polypeptide binding]; other site 985665014895 interdomain contacts; other site 985665014896 partial ornithine binding site; other site 985665014897 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 985665014898 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 985665014899 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 985665014900 catalytic site [active] 985665014901 subunit interface [polypeptide binding]; other site 985665014902 dihydroorotase; Validated; Region: pyrC; PRK09357 985665014903 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 985665014904 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 985665014905 active site 985665014906 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 985665014907 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 985665014908 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 985665014909 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 985665014910 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985665014911 active site 985665014912 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 985665014913 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 985665014914 RNA binding surface [nucleotide binding]; other site 985665014915 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 985665014916 active site 985665014917 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 985665014918 lipoprotein signal peptidase; Provisional; Region: PRK14787 985665014919 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 985665014920 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 985665014921 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 985665014922 active site 985665014923 HIGH motif; other site 985665014924 nucleotide binding site [chemical binding]; other site 985665014925 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 985665014926 active site 985665014927 KMSKS motif; other site 985665014928 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 985665014929 tRNA binding surface [nucleotide binding]; other site 985665014930 anticodon binding site; other site 985665014931 DivIVA protein; Region: DivIVA; pfam05103 985665014932 DivIVA domain; Region: DivI1A_domain; TIGR03544 985665014933 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 985665014934 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 985665014935 RNA binding surface [nucleotide binding]; other site 985665014936 YGGT family; Region: YGGT; pfam02325 985665014937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 985665014938 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 985665014939 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 985665014940 catalytic residue [active] 985665014941 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 985665014942 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 985665014943 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 985665014944 sporulation sigma factor SigG; Reviewed; Region: PRK08215 985665014945 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665014946 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 985665014947 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 985665014948 DNA binding residues [nucleotide binding] 985665014949 sporulation sigma factor SigE; Reviewed; Region: PRK08301 985665014950 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665014951 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 985665014952 DNA binding residues [nucleotide binding] 985665014953 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 985665014954 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 985665014955 cell division protein FtsZ; Validated; Region: PRK09330 985665014956 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 985665014957 nucleotide binding site [chemical binding]; other site 985665014958 SulA interaction site; other site 985665014959 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 985665014960 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 985665014961 nucleotide binding site [chemical binding]; other site 985665014962 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 985665014963 Cell division protein FtsA; Region: FtsA; pfam14450 985665014964 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 985665014965 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 985665014966 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 985665014967 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 985665014968 hinge; other site 985665014969 active site 985665014970 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 985665014971 FAD binding domain; Region: FAD_binding_4; pfam01565 985665014972 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 985665014973 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 985665014974 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 985665014975 active site 985665014976 homodimer interface [polypeptide binding]; other site 985665014977 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 985665014978 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 985665014979 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985665014980 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985665014981 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 985665014982 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 985665014983 Mg++ binding site [ion binding]; other site 985665014984 putative catalytic motif [active] 985665014985 putative substrate binding site [chemical binding]; other site 985665014986 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 985665014987 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 985665014988 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985665014989 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985665014990 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 985665014991 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 985665014992 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 985665014993 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 985665014994 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 985665014995 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 985665014996 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 985665014997 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 985665014998 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 985665014999 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 985665015000 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 985665015001 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 985665015002 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 985665015003 MraW methylase family; Region: Methyltransf_5; pfam01795 985665015004 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 985665015005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 985665015006 MraZ protein; Region: MraZ; pfam02381 985665015007 MraZ protein; Region: MraZ; pfam02381 985665015008 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 985665015009 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 985665015010 homotetramer interface [polypeptide binding]; other site 985665015011 ligand binding site [chemical binding]; other site 985665015012 catalytic site [active] 985665015013 NAD binding site [chemical binding]; other site 985665015014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 985665015015 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 985665015016 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 985665015017 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665015018 Walker A/P-loop; other site 985665015019 ATP binding site [chemical binding]; other site 985665015020 Q-loop/lid; other site 985665015021 ABC transporter signature motif; other site 985665015022 Walker B; other site 985665015023 D-loop; other site 985665015024 H-loop/switch region; other site 985665015025 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 985665015026 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 985665015027 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 985665015028 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 985665015029 dimer interface [polypeptide binding]; other site 985665015030 conserved gate region; other site 985665015031 putative PBP binding loops; other site 985665015032 ABC-ATPase subunit interface; other site 985665015033 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665015034 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 985665015035 dimer interface [polypeptide binding]; other site 985665015036 conserved gate region; other site 985665015037 putative PBP binding loops; other site 985665015038 ABC-ATPase subunit interface; other site 985665015039 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 985665015040 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 985665015041 peptide binding site [polypeptide binding]; other site 985665015042 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 985665015043 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 985665015044 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 985665015045 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 985665015046 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 985665015047 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 985665015048 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 985665015049 putative active site [active] 985665015050 PhoH-like protein; Region: PhoH; pfam02562 985665015051 Transcriptional regulator [Transcription]; Region: LytR; COG1316 985665015052 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 985665015053 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 985665015054 putative GEF interaction site [polypeptide binding]; other site 985665015055 G1 box; other site 985665015056 GTP/Mg2+ binding site [chemical binding]; other site 985665015057 Switch I region; other site 985665015058 G2 box; other site 985665015059 G3 box; other site 985665015060 Switch II region; other site 985665015061 G4 box; other site 985665015062 G5 box; other site 985665015063 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 985665015064 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 985665015065 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 985665015066 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 985665015067 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 985665015068 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 985665015069 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 985665015070 Ligand Binding Site [chemical binding]; other site 985665015071 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 985665015072 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 985665015073 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985665015074 catalytic residue [active] 985665015075 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 985665015076 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 985665015077 N-acetyl-D-glucosamine binding site [chemical binding]; other site 985665015078 catalytic residue [active] 985665015079 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 985665015080 Protein of unknown function (DUF3907); Region: DUF3907; pfam13047 985665015081 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 985665015082 active site 985665015083 catalytic triad [active] 985665015084 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 985665015085 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665015086 DNA-binding site [nucleotide binding]; DNA binding site 985665015087 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 985665015088 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665015089 homodimer interface [polypeptide binding]; other site 985665015090 catalytic residue [active] 985665015091 Transcriptional regulators [Transcription]; Region: MarR; COG1846 985665015092 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 985665015093 putative DNA binding site [nucleotide binding]; other site 985665015094 putative Zn2+ binding site [ion binding]; other site 985665015095 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665015096 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665015097 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665015098 Walker A/P-loop; other site 985665015099 ATP binding site [chemical binding]; other site 985665015100 Q-loop/lid; other site 985665015101 ABC transporter signature motif; other site 985665015102 Walker B; other site 985665015103 D-loop; other site 985665015104 H-loop/switch region; other site 985665015105 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665015106 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665015107 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 985665015108 Walker A/P-loop; other site 985665015109 ATP binding site [chemical binding]; other site 985665015110 Q-loop/lid; other site 985665015111 ABC transporter signature motif; other site 985665015112 Walker B; other site 985665015113 D-loop; other site 985665015114 H-loop/switch region; other site 985665015115 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 985665015116 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 985665015117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665015118 homodimer interface [polypeptide binding]; other site 985665015119 catalytic residue [active] 985665015120 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 985665015121 Uncharacterized conserved protein [Function unknown]; Region: COG0327 985665015122 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 985665015123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 985665015124 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 985665015125 Uncharacterized conserved protein [Function unknown]; Region: COG0327 985665015126 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 985665015127 Family of unknown function (DUF633); Region: DUF633; pfam04816 985665015128 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 985665015129 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 985665015130 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 985665015131 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665015132 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 985665015133 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 985665015134 DNA binding residues [nucleotide binding] 985665015135 DNA primase; Validated; Region: dnaG; PRK05667 985665015136 CHC2 zinc finger; Region: zf-CHC2; pfam01807 985665015137 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 985665015138 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 985665015139 active site 985665015140 metal binding site [ion binding]; metal-binding site 985665015141 interdomain interaction site; other site 985665015142 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 985665015143 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 985665015144 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 985665015145 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 985665015146 dimer interface [polypeptide binding]; other site 985665015147 motif 1; other site 985665015148 active site 985665015149 motif 2; other site 985665015150 motif 3; other site 985665015151 Recombination protein O N terminal; Region: RecO_N; pfam11967 985665015152 DNA repair protein RecO; Region: reco; TIGR00613 985665015153 Recombination protein O C terminal; Region: RecO_C; pfam02565 985665015154 YqzL-like protein; Region: YqzL; pfam14006 985665015155 GTPase Era; Reviewed; Region: era; PRK00089 985665015156 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 985665015157 G1 box; other site 985665015158 GTP/Mg2+ binding site [chemical binding]; other site 985665015159 Switch I region; other site 985665015160 G2 box; other site 985665015161 Switch II region; other site 985665015162 G3 box; other site 985665015163 G4 box; other site 985665015164 G5 box; other site 985665015165 KH domain; Region: KH_2; pfam07650 985665015166 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 985665015167 metal-binding heat shock protein; Provisional; Region: PRK00016 985665015168 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 985665015169 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665015170 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665015171 Zn2+ binding site [ion binding]; other site 985665015172 Mg2+ binding site [ion binding]; other site 985665015173 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 985665015174 PhoH-like protein; Region: PhoH; pfam02562 985665015175 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 985665015176 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 985665015177 YabP family; Region: YabP; cl06766 985665015178 amino acid transporter; Region: 2A0306; TIGR00909 985665015179 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 985665015180 hypothetical protein; Provisional; Region: PRK13665 985665015181 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 985665015182 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 985665015183 active site residues [active] 985665015184 dimer interface [polypeptide binding]; other site 985665015185 Yqey-like protein; Region: YqeY; pfam09424 985665015186 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 985665015187 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 985665015188 nucleotide binding site/active site [active] 985665015189 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 985665015190 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 985665015191 DNA-binding site [nucleotide binding]; DNA binding site 985665015192 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 985665015193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665015194 homodimer interface [polypeptide binding]; other site 985665015195 catalytic residue [active] 985665015196 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 985665015197 EamA-like transporter family; Region: EamA; pfam00892 985665015198 EamA-like transporter family; Region: EamA; pfam00892 985665015199 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 985665015200 AAA domain; Region: AAA_23; pfam13476 985665015201 Walker A/P-loop; other site 985665015202 ATP binding site [chemical binding]; other site 985665015203 Q-loop/lid; other site 985665015204 ABC transporter signature motif; other site 985665015205 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 985665015206 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665015207 ABC transporter signature motif; other site 985665015208 Walker B; other site 985665015209 D-loop; other site 985665015210 H-loop/switch region; other site 985665015211 exonuclease subunit SbcD; Provisional; Region: PRK10966 985665015212 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 985665015213 active site 985665015214 metal binding site [ion binding]; metal-binding site 985665015215 DNA binding site [nucleotide binding] 985665015216 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 985665015217 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 985665015218 Part of AAA domain; Region: AAA_19; pfam13245 985665015219 Vi polysaccharide biosynthesis protein TviA; Provisional; Region: PRK15183 985665015220 Family description; Region: UvrD_C_2; pfam13538 985665015221 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 985665015222 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 985665015223 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 985665015224 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 985665015225 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 985665015226 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 985665015227 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 985665015228 putative RNA binding site [nucleotide binding]; other site 985665015229 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 985665015230 S-adenosylmethionine binding site [chemical binding]; other site 985665015231 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 985665015232 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 985665015233 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 985665015234 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 985665015235 active site 985665015236 Ap6A binding site [chemical binding]; other site 985665015237 nudix motif; other site 985665015238 metal binding site [ion binding]; metal-binding site 985665015239 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 985665015240 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 985665015241 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 985665015242 FeS/SAM binding site; other site 985665015243 TRAM domain; Region: TRAM; cl01282 985665015244 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 985665015245 RNA methyltransferase, RsmE family; Region: TIGR00046 985665015246 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 985665015247 Peptidase family M50; Region: Peptidase_M50; pfam02163 985665015248 active site 985665015249 putative substrate binding region [chemical binding]; other site 985665015250 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 985665015251 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 985665015252 S-adenosylmethionine binding site [chemical binding]; other site 985665015253 YfhD-like protein; Region: YfhD; pfam14151 985665015254 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 985665015255 Malic enzyme, N-terminal domain; Region: malic; pfam00390 985665015256 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 985665015257 putative NAD(P) binding site [chemical binding]; other site 985665015258 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 985665015259 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 985665015260 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665015261 active site 985665015262 phosphorylation site [posttranslational modification] 985665015263 intermolecular recognition site; other site 985665015264 dimerization interface [polypeptide binding]; other site 985665015265 sensory histidine kinase DcuS; Provisional; Region: PRK11086 985665015266 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665015267 ATP binding site [chemical binding]; other site 985665015268 Mg2+ binding site [ion binding]; other site 985665015269 G-X-G motif; other site 985665015270 chaperone protein DnaJ; Provisional; Region: PRK14280 985665015271 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 985665015272 HSP70 interaction site [polypeptide binding]; other site 985665015273 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 985665015274 substrate binding site [polypeptide binding]; other site 985665015275 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 985665015276 Zn binding sites [ion binding]; other site 985665015277 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 985665015278 dimer interface [polypeptide binding]; other site 985665015279 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 985665015280 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 985665015281 nucleotide binding site [chemical binding]; other site 985665015282 NEF interaction site [polypeptide binding]; other site 985665015283 SBD interface [polypeptide binding]; other site 985665015284 GrpE; Region: GrpE; pfam01025 985665015285 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 985665015286 dimer interface [polypeptide binding]; other site 985665015287 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 985665015288 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 985665015289 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 985665015290 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665015291 Coenzyme A binding pocket [chemical binding]; other site 985665015292 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 985665015293 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 985665015294 FeS/SAM binding site; other site 985665015295 HemN C-terminal domain; Region: HemN_C; pfam06969 985665015296 GTP-binding protein LepA; Provisional; Region: PRK05433 985665015297 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 985665015298 G1 box; other site 985665015299 putative GEF interaction site [polypeptide binding]; other site 985665015300 GTP/Mg2+ binding site [chemical binding]; other site 985665015301 Switch I region; other site 985665015302 G2 box; other site 985665015303 G3 box; other site 985665015304 Switch II region; other site 985665015305 G4 box; other site 985665015306 G5 box; other site 985665015307 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 985665015308 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 985665015309 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 985665015310 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 985665015311 stage II sporulation protein P; Region: spore_II_P; TIGR02867 985665015312 germination protease; Provisional; Region: PRK02858 985665015313 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 985665015314 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 985665015315 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 985665015316 Putative zinc-finger; Region: zf-HC2; pfam13490 985665015317 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 985665015318 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665015319 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 985665015320 DNA binding residues [nucleotide binding] 985665015321 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 985665015322 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 985665015323 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 985665015324 intersubunit interface [polypeptide binding]; other site 985665015325 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 985665015326 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 985665015327 Competence protein; Region: Competence; pfam03772 985665015328 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 985665015329 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 985665015330 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 985665015331 catalytic motif [active] 985665015332 Zn binding site [ion binding]; other site 985665015333 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 985665015334 Helix-hairpin-helix motif; Region: HHH; pfam00633 985665015335 late competence protein ComER; Validated; Region: PRK07680 985665015336 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 985665015337 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 985665015338 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 985665015339 HIGH motif; other site 985665015340 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 985665015341 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 985665015342 active site 985665015343 KMSKS motif; other site 985665015344 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 985665015345 tRNA binding surface [nucleotide binding]; other site 985665015346 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 985665015347 active site 1 [active] 985665015348 dimer interface [polypeptide binding]; other site 985665015349 hexamer interface [polypeptide binding]; other site 985665015350 active site 2 [active] 985665015351 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 985665015352 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 985665015353 S-adenosylmethionine binding site [chemical binding]; other site 985665015354 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 985665015355 S1 domain; Region: S1_2; pfam13509 985665015356 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 985665015357 RNA binding site [nucleotide binding]; other site 985665015358 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 985665015359 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665015360 Zn2+ binding site [ion binding]; other site 985665015361 Mg2+ binding site [ion binding]; other site 985665015362 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 985665015363 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 985665015364 active site 985665015365 (T/H)XGH motif; other site 985665015366 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 985665015367 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 985665015368 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 985665015369 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 985665015370 shikimate binding site; other site 985665015371 NAD(P) binding site [chemical binding]; other site 985665015372 GTPase YqeH; Provisional; Region: PRK13796 985665015373 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 985665015374 GTP/Mg2+ binding site [chemical binding]; other site 985665015375 G4 box; other site 985665015376 G5 box; other site 985665015377 G1 box; other site 985665015378 Switch I region; other site 985665015379 G2 box; other site 985665015380 G3 box; other site 985665015381 Switch II region; other site 985665015382 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 985665015383 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 985665015384 active site 985665015385 motif I; other site 985665015386 motif II; other site 985665015387 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 985665015388 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 985665015389 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 985665015390 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 985665015391 Protein of unknown function DUF58; Region: DUF58; pfam01882 985665015392 MoxR-like ATPases [General function prediction only]; Region: COG0714 985665015393 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 985665015394 Walker A motif; other site 985665015395 ATP binding site [chemical binding]; other site 985665015396 Walker B motif; other site 985665015397 arginine finger; other site 985665015398 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 985665015399 stage V sporulation protein AD; Validated; Region: PRK08304 985665015400 stage V sporulation protein AD; Provisional; Region: PRK12404 985665015401 SpoVA protein; Region: SpoVA; cl04298 985665015402 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 985665015403 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 985665015404 oligomer interface [polypeptide binding]; other site 985665015405 active site 985665015406 metal binding site [ion binding]; metal-binding site 985665015407 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 985665015408 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 985665015409 dimer interface [polypeptide binding]; other site 985665015410 active site 985665015411 metal binding site [ion binding]; metal-binding site 985665015412 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 985665015413 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 985665015414 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665015415 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665015416 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665015417 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 985665015418 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665015419 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 985665015420 dimer interface [polypeptide binding]; other site 985665015421 conserved gate region; other site 985665015422 putative PBP binding loops; other site 985665015423 ABC-ATPase subunit interface; other site 985665015424 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665015425 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 985665015426 dimer interface [polypeptide binding]; other site 985665015427 conserved gate region; other site 985665015428 ABC-ATPase subunit interface; other site 985665015429 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665015430 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 985665015431 EamA-like transporter family; Region: EamA; pfam00892 985665015432 EamA-like transporter family; Region: EamA; pfam00892 985665015433 Uncharacterized conserved protein [Function unknown]; Region: COG1434 985665015434 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 985665015435 putative active site [active] 985665015436 Uncharacterized conserved protein [Function unknown]; Region: COG1683 985665015437 sporulation sigma factor SigK; Reviewed; Region: PRK05803 985665015438 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665015439 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 985665015440 DNA binding residues [nucleotide binding] 985665015441 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 985665015442 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 985665015443 Interdomain contacts; other site 985665015444 Cytokine receptor motif; other site 985665015445 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 985665015446 Interdomain contacts; other site 985665015447 Cytokine receptor motif; other site 985665015448 Fibronectin type 3 domain; Region: FN3; smart00060 985665015449 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 985665015450 Interdomain contacts; other site 985665015451 Cytokine receptor motif; other site 985665015452 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 985665015453 Interdomain contacts; other site 985665015454 Cytokine receptor motif; other site 985665015455 S-layer homology domain; Region: SLH; pfam00395 985665015456 S-layer homology domain; Region: SLH; pfam00395 985665015457 S-layer homology domain; Region: SLH; pfam00395 985665015458 putative lipoprotein, rSAM/lipoprotein system; Region: lipo_with_rSAM; TIGR04134 985665015459 MG2 domain; Region: A2M_N; pfam01835 985665015460 AAA domain; Region: AAA_33; pfam13671 985665015461 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 985665015462 non-specific DNA binding site [nucleotide binding]; other site 985665015463 salt bridge; other site 985665015464 sequence-specific DNA binding site [nucleotide binding]; other site 985665015465 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 985665015466 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 985665015467 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 985665015468 glycosyltransferase, MGT family; Region: MGT; TIGR01426 985665015469 active site 985665015470 TDP-binding site; other site 985665015471 acceptor substrate-binding pocket; other site 985665015472 homodimer interface [polypeptide binding]; other site 985665015473 Right handed beta helix region; Region: Beta_helix; pfam13229 985665015474 Disaggregatase related; Region: Disaggr_assoc; pfam08480 985665015475 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 985665015476 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 985665015477 dimer interface [polypeptide binding]; other site 985665015478 ABC-ATPase subunit interface; other site 985665015479 putative PBP binding loops; other site 985665015480 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 985665015481 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 985665015482 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 985665015483 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 985665015484 ATP binding site [chemical binding]; other site 985665015485 substrate interface [chemical binding]; other site 985665015486 Ubiquitin-like proteins; Region: UBQ; cl00155 985665015487 charged pocket; other site 985665015488 hydrophobic patch; other site 985665015489 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 985665015490 MoaE homodimer interface [polypeptide binding]; other site 985665015491 MoaD interaction [polypeptide binding]; other site 985665015492 active site residues [active] 985665015493 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 985665015494 MoaE interaction surface [polypeptide binding]; other site 985665015495 MoeB interaction surface [polypeptide binding]; other site 985665015496 thiocarboxylated glycine; other site 985665015497 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 985665015498 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 985665015499 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 985665015500 FeS/SAM binding site; other site 985665015501 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 985665015502 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 985665015503 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 985665015504 catalytic loop [active] 985665015505 iron binding site [ion binding]; other site 985665015506 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 985665015507 4Fe-4S binding domain; Region: Fer4; pfam00037 985665015508 4Fe-4S binding domain; Region: Fer4; pfam00037 985665015509 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 985665015510 [4Fe-4S] binding site [ion binding]; other site 985665015511 molybdopterin cofactor binding site; other site 985665015512 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 985665015513 molybdopterin cofactor binding site; other site 985665015514 Uncharacterized conserved protein [Function unknown]; Region: COG2427 985665015515 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 985665015516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 985665015517 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665015518 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665015519 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 985665015520 dimerization interface [polypeptide binding]; other site 985665015521 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665015522 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665015523 dimer interface [polypeptide binding]; other site 985665015524 putative CheW interface [polypeptide binding]; other site 985665015525 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 985665015526 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 985665015527 ligand binding site [chemical binding]; other site 985665015528 Restriction endonuclease; Region: Mrr_cat; pfam04471 985665015529 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 985665015530 Aspartase; Region: Aspartase; cd01357 985665015531 active sites [active] 985665015532 tetramer interface [polypeptide binding]; other site 985665015533 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 985665015534 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985665015535 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 985665015536 generic binding surface I; other site 985665015537 generic binding surface II; other site 985665015538 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 985665015539 putative active site [active] 985665015540 putative catalytic site [active] 985665015541 putative Mg binding site IVb [ion binding]; other site 985665015542 putative phosphate binding site [ion binding]; other site 985665015543 putative DNA binding site [nucleotide binding]; other site 985665015544 putative Mg binding site IVa [ion binding]; other site 985665015545 S-layer homology domain; Region: SLH; pfam00395 985665015546 S-layer homology domain; Region: SLH; pfam00395 985665015547 aminotransferase A; Validated; Region: PRK07683 985665015548 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 985665015549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665015550 homodimer interface [polypeptide binding]; other site 985665015551 catalytic residue [active] 985665015552 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 985665015553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665015554 H-loop/switch region; other site 985665015555 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 985665015556 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 985665015557 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 985665015558 dimer interface [polypeptide binding]; other site 985665015559 conserved gate region; other site 985665015560 putative PBP binding loops; other site 985665015561 ABC-ATPase subunit interface; other site 985665015562 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 985665015563 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 985665015564 ABC-ATPase subunit interface; other site 985665015565 putative PBP binding loops; other site 985665015566 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 985665015567 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665015568 Walker A/P-loop; other site 985665015569 ATP binding site [chemical binding]; other site 985665015570 Q-loop/lid; other site 985665015571 ABC transporter signature motif; other site 985665015572 Walker B; other site 985665015573 D-loop; other site 985665015574 H-loop/switch region; other site 985665015575 TOBE domain; Region: TOBE_2; pfam08402 985665015576 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 985665015577 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985665015578 metal binding site [ion binding]; metal-binding site 985665015579 putative dimer interface [polypeptide binding]; other site 985665015580 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 985665015581 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 985665015582 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 985665015583 trimer interface [polypeptide binding]; other site 985665015584 active site 985665015585 substrate binding site [chemical binding]; other site 985665015586 CoA binding site [chemical binding]; other site 985665015587 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 985665015588 EamA-like transporter family; Region: EamA; pfam00892 985665015589 EamA-like transporter family; Region: EamA; pfam00892 985665015590 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 985665015591 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 985665015592 active site residue [active] 985665015593 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 985665015594 active site residue [active] 985665015595 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665015596 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 985665015597 Coenzyme A binding pocket [chemical binding]; other site 985665015598 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665015599 Coenzyme A binding pocket [chemical binding]; other site 985665015600 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665015601 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665015602 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 985665015603 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 985665015604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665015605 NAD(P) binding site [chemical binding]; other site 985665015606 active site 985665015607 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 985665015608 catalytic motif [active] 985665015609 Catalytic residue [active] 985665015610 Fibrobacter succinogenes paralogous family TIGR02172; Region: Fb_sc_TIGR02172 985665015611 non-specific DNA binding site [nucleotide binding]; other site 985665015612 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 985665015613 salt bridge; other site 985665015614 sequence-specific DNA binding site [nucleotide binding]; other site 985665015615 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 985665015616 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985665015617 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 985665015618 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 985665015619 non-specific DNA binding site [nucleotide binding]; other site 985665015620 salt bridge; other site 985665015621 sequence-specific DNA binding site [nucleotide binding]; other site 985665015622 Protein of unknown function (DUF3782); Region: DUF3782; pfam12644 985665015623 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 985665015624 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 985665015625 active site 985665015626 DNA binding site [nucleotide binding] 985665015627 Int/Topo IB signature motif; other site 985665015628 Domain of unknown function (DUF4284); Region: DUF4284; pfam14112 985665015629 Cache domain; Region: Cache_1; pfam02743 985665015630 HAMP domain; Region: HAMP; pfam00672 985665015631 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 985665015632 dimerization interface [polypeptide binding]; other site 985665015633 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665015634 dimer interface [polypeptide binding]; other site 985665015635 putative CheW interface [polypeptide binding]; other site 985665015636 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 985665015637 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 985665015638 siderophore binding site; other site 985665015639 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 985665015640 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 985665015641 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665015642 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665015643 putative substrate translocation pore; other site 985665015644 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665015645 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665015646 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665015647 Coenzyme A binding pocket [chemical binding]; other site 985665015648 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 985665015649 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 985665015650 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 985665015651 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 985665015652 allophanate hydrolase; Provisional; Region: PRK08186 985665015653 Amidase; Region: Amidase; cl11426 985665015654 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 985665015655 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 985665015656 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 985665015657 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 985665015658 dimer interface [polypeptide binding]; other site 985665015659 conserved gate region; other site 985665015660 putative PBP binding loops; other site 985665015661 ABC-ATPase subunit interface; other site 985665015662 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 985665015663 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 985665015664 Walker A/P-loop; other site 985665015665 ATP binding site [chemical binding]; other site 985665015666 Q-loop/lid; other site 985665015667 ABC transporter signature motif; other site 985665015668 Walker B; other site 985665015669 D-loop; other site 985665015670 H-loop/switch region; other site 985665015671 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 985665015672 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 985665015673 NMT1/THI5 like; Region: NMT1; pfam09084 985665015674 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 985665015675 Isochorismatase family; Region: Isochorismatase; pfam00857 985665015676 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 985665015677 catalytic triad [active] 985665015678 conserved cis-peptide bond; other site 985665015679 Isochorismatase family; Region: Isochorismatase; pfam00857 985665015680 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 985665015681 catalytic triad [active] 985665015682 conserved cis-peptide bond; other site 985665015683 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 985665015684 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 985665015685 putative metal binding site [ion binding]; other site 985665015686 Predicted transcriptional regulator [Transcription]; Region: COG2345 985665015687 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 985665015688 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 985665015689 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 985665015690 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665015691 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665015692 dimer interface [polypeptide binding]; other site 985665015693 putative CheW interface [polypeptide binding]; other site 985665015694 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 985665015695 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 985665015696 substrate binding pocket [chemical binding]; other site 985665015697 chain length determination region; other site 985665015698 substrate-Mg2+ binding site; other site 985665015699 catalytic residues [active] 985665015700 aspartate-rich region 1; other site 985665015701 active site lid residues [active] 985665015702 aspartate-rich region 2; other site 985665015703 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 985665015704 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 985665015705 putative metal binding site [ion binding]; other site 985665015706 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 985665015707 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 985665015708 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 985665015709 Phosphotransferase enzyme family; Region: APH; pfam01636 985665015710 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 985665015711 active site 985665015712 ATP binding site [chemical binding]; other site 985665015713 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665015714 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665015715 putative substrate translocation pore; other site 985665015716 CAAX protease self-immunity; Region: Abi; pfam02517 985665015717 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 985665015718 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 985665015719 catalytic core [active] 985665015720 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 985665015721 S-adenosylmethionine binding site [chemical binding]; other site 985665015722 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 985665015723 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985665015724 catalytic residue [active] 985665015725 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 985665015726 domain interfaces; other site 985665015727 active site 985665015728 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 985665015729 signature motif; other site 985665015730 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665015731 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665015732 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665015733 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665015734 putative substrate translocation pore; other site 985665015735 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 985665015736 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 985665015737 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 985665015738 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665015739 Walker A/P-loop; other site 985665015740 ATP binding site [chemical binding]; other site 985665015741 Q-loop/lid; other site 985665015742 ABC transporter signature motif; other site 985665015743 Walker B; other site 985665015744 D-loop; other site 985665015745 H-loop/switch region; other site 985665015746 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 985665015747 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 985665015748 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665015749 Walker A/P-loop; other site 985665015750 ATP binding site [chemical binding]; other site 985665015751 Q-loop/lid; other site 985665015752 ABC transporter signature motif; other site 985665015753 Walker B; other site 985665015754 D-loop; other site 985665015755 H-loop/switch region; other site 985665015756 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 985665015757 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 985665015758 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 985665015759 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 985665015760 metal binding site [ion binding]; metal-binding site 985665015761 dimer interface [polypeptide binding]; other site 985665015762 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 985665015763 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 985665015764 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 985665015765 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 985665015766 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 985665015767 dimer interface [polypeptide binding]; other site 985665015768 conserved gate region; other site 985665015769 putative PBP binding loops; other site 985665015770 ABC-ATPase subunit interface; other site 985665015771 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 985665015772 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 985665015773 dimer interface [polypeptide binding]; other site 985665015774 conserved gate region; other site 985665015775 putative PBP binding loops; other site 985665015776 ABC-ATPase subunit interface; other site 985665015777 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 985665015778 Predicted transcriptional regulators [Transcription]; Region: COG1695 985665015779 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 985665015780 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665015781 Major Facilitator Superfamily; Region: MFS_1; pfam07690 985665015782 putative substrate translocation pore; other site 985665015783 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665015784 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 985665015785 beta-galactosidase; Region: BGL; TIGR03356 985665015786 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 985665015787 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 985665015788 active site turn [active] 985665015789 phosphorylation site [posttranslational modification] 985665015790 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665015791 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 985665015792 HPr interaction site; other site 985665015793 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665015794 active site 985665015795 phosphorylation site [posttranslational modification] 985665015796 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985665015797 CAT RNA binding domain; Region: CAT_RBD; smart01061 985665015798 PRD domain; Region: PRD; pfam00874 985665015799 PRD domain; Region: PRD; pfam00874 985665015800 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 985665015801 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 985665015802 FeS/SAM binding site; other site 985665015803 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 985665015804 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 985665015805 MoaE interaction surface [polypeptide binding]; other site 985665015806 MoeB interaction surface [polypeptide binding]; other site 985665015807 thiocarboxylated glycine; other site 985665015808 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 985665015809 MoaE homodimer interface [polypeptide binding]; other site 985665015810 MoaD interaction [polypeptide binding]; other site 985665015811 active site residues [active] 985665015812 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 985665015813 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 985665015814 ATP binding site [chemical binding]; other site 985665015815 substrate interface [chemical binding]; other site 985665015816 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 985665015817 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665015818 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 985665015819 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665015820 active site 985665015821 phosphorylation site [posttranslational modification] 985665015822 intermolecular recognition site; other site 985665015823 dimerization interface [polypeptide binding]; other site 985665015824 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 985665015825 DNA binding residues [nucleotide binding] 985665015826 dimerization interface [polypeptide binding]; other site 985665015827 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 985665015828 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 985665015829 Histidine kinase; Region: HisKA_3; pfam07730 985665015830 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665015831 ATP binding site [chemical binding]; other site 985665015832 Mg2+ binding site [ion binding]; other site 985665015833 G-X-G motif; other site 985665015834 GAF domain; Region: GAF_3; pfam13492 985665015835 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 985665015836 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 985665015837 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 985665015838 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 985665015839 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 985665015840 [4Fe-4S] binding site [ion binding]; other site 985665015841 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 985665015842 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 985665015843 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 985665015844 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 985665015845 molybdopterin cofactor binding site; other site 985665015846 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 985665015847 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 985665015848 putative PBP binding loops; other site 985665015849 ABC-ATPase subunit interface; other site 985665015850 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 985665015851 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 985665015852 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 985665015853 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 985665015854 Hemerythrin-like domain; Region: Hr-like; cd12108 985665015855 Fe binding site [ion binding]; other site 985665015856 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 985665015857 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 985665015858 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 985665015859 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 985665015860 FeS/SAM binding site; other site 985665015861 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 985665015862 YwiC-like protein; Region: YwiC; pfam14256 985665015863 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 985665015864 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 985665015865 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665015866 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 985665015867 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 985665015868 metal ion-dependent adhesion site (MIDAS); other site 985665015869 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 985665015870 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 985665015871 DNA binding site [nucleotide binding] 985665015872 active site 985665015873 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 985665015874 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 985665015875 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665015876 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665015877 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 985665015878 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665015879 putative substrate translocation pore; other site 985665015880 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 985665015881 putative DNA binding site [nucleotide binding]; other site 985665015882 dimerization interface [polypeptide binding]; other site 985665015883 putative Zn2+ binding site [ion binding]; other site 985665015884 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 985665015885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 985665015886 NAD(P) binding site [chemical binding]; other site 985665015887 active site 985665015888 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 985665015889 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 985665015890 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665015891 Helix-turn-helix domain; Region: HTH_18; pfam12833 985665015892 Transcriptional regulators [Transcription]; Region: PurR; COG1609 985665015893 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 985665015894 DNA binding site [nucleotide binding] 985665015895 domain linker motif; other site 985665015896 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 985665015897 ligand binding site [chemical binding]; other site 985665015898 dimerization interface [polypeptide binding]; other site 985665015899 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 985665015900 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 985665015901 putative NAD(P) binding site [chemical binding]; other site 985665015902 catalytic Zn binding site [ion binding]; other site 985665015903 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 985665015904 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665015905 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665015906 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 985665015907 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 985665015908 putative ligand binding residues [chemical binding]; other site 985665015909 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 985665015910 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 985665015911 putative metal binding site [ion binding]; other site 985665015912 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 985665015913 metal ion-dependent adhesion site (MIDAS); other site 985665015914 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 985665015915 Spore germination protein; Region: Spore_permease; cl17796 985665015916 VanZ like family; Region: VanZ; pfam04892 985665015917 RDD family; Region: RDD; pfam06271 985665015918 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 985665015919 dimer interface [polypeptide binding]; other site 985665015920 FMN binding site [chemical binding]; other site 985665015921 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665015922 MarR family; Region: MarR; pfam01047 985665015923 glutamate dehydrogenase; Provisional; Region: PRK09414 985665015924 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 985665015925 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 985665015926 NAD(P) binding site [chemical binding]; other site 985665015927 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 985665015928 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 985665015929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665015930 catalytic residue [active] 985665015931 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 985665015932 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 985665015933 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 985665015934 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 985665015935 cofactor binding site; other site 985665015936 DNA binding site [nucleotide binding] 985665015937 substrate interaction site [chemical binding]; other site 985665015938 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 985665015939 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 985665015940 putative dimer interface [polypeptide binding]; other site 985665015941 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 985665015942 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 985665015943 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 985665015944 conserved cys residue [active] 985665015945 Predicted transcriptional regulator [Transcription]; Region: COG2378 985665015946 HTH domain; Region: HTH_11; pfam08279 985665015947 WYL domain; Region: WYL; pfam13280 985665015948 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 985665015949 YwqJ-like deaminase; Region: YwqJ-deaminase; pfam14431 985665015950 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 985665015951 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 985665015952 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 985665015953 ligand binding site [chemical binding]; other site 985665015954 flexible hinge region; other site 985665015955 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 985665015956 putative switch regulator; other site 985665015957 non-specific DNA interactions [nucleotide binding]; other site 985665015958 DNA binding site [nucleotide binding] 985665015959 sequence specific DNA binding site [nucleotide binding]; other site 985665015960 putative cAMP binding site [chemical binding]; other site 985665015961 carbamate kinase; Reviewed; Region: PRK12686 985665015962 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 985665015963 putative substrate binding site [chemical binding]; other site 985665015964 nucleotide binding site [chemical binding]; other site 985665015965 nucleotide binding site [chemical binding]; other site 985665015966 homodimer interface [polypeptide binding]; other site 985665015967 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 985665015968 ornithine carbamoyltransferase; Validated; Region: PRK02102 985665015969 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 985665015970 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 985665015971 arginine deiminase; Provisional; Region: PRK01388 985665015972 Arginine repressor [Transcription]; Region: ArgR; COG1438 985665015973 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 985665015974 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 985665015975 DGC domain; Region: DGC; pfam08859 985665015976 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665015977 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 985665015978 dimer interface [polypeptide binding]; other site 985665015979 conserved gate region; other site 985665015980 putative PBP binding loops; other site 985665015981 ABC-ATPase subunit interface; other site 985665015982 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 985665015983 dimer interface [polypeptide binding]; other site 985665015984 conserved gate region; other site 985665015985 putative PBP binding loops; other site 985665015986 ABC-ATPase subunit interface; other site 985665015987 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665015988 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665015989 Response regulator receiver domain; Region: Response_reg; pfam00072 985665015990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665015991 active site 985665015992 phosphorylation site [posttranslational modification] 985665015993 intermolecular recognition site; other site 985665015994 dimerization interface [polypeptide binding]; other site 985665015995 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665015996 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665015997 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665015998 Histidine kinase; Region: His_kinase; pfam06580 985665015999 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665016000 ATP binding site [chemical binding]; other site 985665016001 Mg2+ binding site [ion binding]; other site 985665016002 G-X-G motif; other site 985665016003 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 985665016004 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 985665016005 NADP binding site [chemical binding]; other site 985665016006 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 985665016007 MarR family; Region: MarR; pfam01047 985665016008 short chain dehydrogenase; Provisional; Region: PRK12747 985665016009 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 985665016010 NADP binding site [chemical binding]; other site 985665016011 homodimer interface [polypeptide binding]; other site 985665016012 active site 985665016013 substrate binding site [chemical binding]; other site 985665016014 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 985665016015 Coenzyme A binding pocket [chemical binding]; other site 985665016016 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 985665016017 Transposase IS200 like; Region: Y1_Tnp; pfam01797 985665016018 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 985665016019 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 985665016020 AAA domain; Region: AAA_11; pfam13086 985665016021 Part of AAA domain; Region: AAA_19; pfam13245 985665016022 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 985665016023 AAA domain; Region: AAA_12; pfam13087 985665016024 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 985665016025 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 985665016026 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 985665016027 nucleotide binding site [chemical binding]; other site 985665016028 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 985665016029 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 985665016030 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 985665016031 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 985665016032 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665016033 Response regulator receiver domain; Region: Response_reg; pfam00072 985665016034 active site 985665016035 phosphorylation site [posttranslational modification] 985665016036 intermolecular recognition site; other site 985665016037 dimerization interface [polypeptide binding]; other site 985665016038 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665016039 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665016040 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665016041 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 985665016042 dimerization interface [polypeptide binding]; other site 985665016043 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 985665016044 Histidine kinase; Region: His_kinase; pfam06580 985665016045 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665016046 ATP binding site [chemical binding]; other site 985665016047 Mg2+ binding site [ion binding]; other site 985665016048 G-X-G motif; other site 985665016049 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 985665016050 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 985665016051 dimer interface [polypeptide binding]; other site 985665016052 conserved gate region; other site 985665016053 putative PBP binding loops; other site 985665016054 ABC-ATPase subunit interface; other site 985665016055 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 985665016056 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 985665016057 dimer interface [polypeptide binding]; other site 985665016058 conserved gate region; other site 985665016059 putative PBP binding loops; other site 985665016060 ABC-ATPase subunit interface; other site 985665016061 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 985665016062 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 985665016063 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665016064 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665016065 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 985665016066 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 985665016067 phosphate binding site [ion binding]; other site 985665016068 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 985665016069 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 985665016070 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 985665016071 Glycosyl hydrolase family 12; Region: Glyco_hydro_12; cl03302 985665016072 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 985665016073 Amb_all domain; Region: Amb_all; smart00656 985665016074 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 985665016075 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 985665016076 Walker A/P-loop; other site 985665016077 ATP binding site [chemical binding]; other site 985665016078 Q-loop/lid; other site 985665016079 ABC transporter signature motif; other site 985665016080 Walker B; other site 985665016081 D-loop; other site 985665016082 H-loop/switch region; other site 985665016083 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 985665016084 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 985665016085 HAMP domain; Region: HAMP; pfam00672 985665016086 dimerization interface [polypeptide binding]; other site 985665016087 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 985665016088 dimer interface [polypeptide binding]; other site 985665016089 phosphorylation site [posttranslational modification] 985665016090 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665016091 ATP binding site [chemical binding]; other site 985665016092 Mg2+ binding site [ion binding]; other site 985665016093 G-X-G motif; other site 985665016094 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665016095 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665016096 active site 985665016097 phosphorylation site [posttranslational modification] 985665016098 intermolecular recognition site; other site 985665016099 dimerization interface [polypeptide binding]; other site 985665016100 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 985665016101 DNA binding site [nucleotide binding] 985665016102 H-type lectin domain; Region: H_lectin; pfam09458 985665016103 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 985665016104 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 985665016105 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 985665016106 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 985665016107 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 985665016108 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 985665016109 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 985665016110 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 985665016111 salt bridge; other site 985665016112 non-specific DNA binding site [nucleotide binding]; other site 985665016113 sequence-specific DNA binding site [nucleotide binding]; other site 985665016114 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 985665016115 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 985665016116 active site 985665016117 DNA binding site [nucleotide binding] 985665016118 Int/Topo IB signature motif; other site 985665016119 Restriction endonuclease; Region: Mrr_cat; pfam04471 985665016120 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 985665016121 non-specific DNA binding site [nucleotide binding]; other site 985665016122 salt bridge; other site 985665016123 sequence-specific DNA binding site [nucleotide binding]; other site 985665016124 Peptidase S8 family domain in BacillopeptidaseF-like proteins; Region: Peptidases_S8_BacillopeptidaseF-like; cd07481 985665016125 active site 985665016126 catalytic triad [active] 985665016127 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 985665016128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 985665016129 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 985665016130 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 985665016131 Cna protein B-type domain; Region: Cna_B_2; pfam13715 985665016132 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 985665016133 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 985665016134 Peptidase S8 family domain in BacillopeptidaseF-like proteins; Region: Peptidases_S8_BacillopeptidaseF-like; cd07481 985665016135 active site 985665016136 catalytic triad [active] 985665016137 putative transporter; Provisional; Region: PRK11660 985665016138 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 985665016139 Sulfate transporter family; Region: Sulfate_transp; pfam00916 985665016140 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 985665016141 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 985665016142 dimerization interface [polypeptide binding]; other site 985665016143 putative DNA binding site [nucleotide binding]; other site 985665016144 putative Zn2+ binding site [ion binding]; other site 985665016145 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 985665016146 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 985665016147 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 985665016148 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 985665016149 Walker A motif; other site 985665016150 ATP binding site [chemical binding]; other site 985665016151 Walker B motif; other site 985665016152 arginine finger; other site 985665016153 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 985665016154 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 985665016155 Walker A/P-loop; other site 985665016156 ATP binding site [chemical binding]; other site 985665016157 Q-loop/lid; other site 985665016158 ABC transporter signature motif; other site 985665016159 Walker B; other site 985665016160 D-loop; other site 985665016161 H-loop/switch region; other site 985665016162 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 985665016163 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 985665016164 dimer interface [polypeptide binding]; other site 985665016165 conserved gate region; other site 985665016166 putative PBP binding loops; other site 985665016167 ABC-ATPase subunit interface; other site 985665016168 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 985665016169 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 985665016170 substrate binding pocket [chemical binding]; other site 985665016171 membrane-bound complex binding site; other site 985665016172 hinge residues; other site 985665016173 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665016174 H+ Antiporter protein; Region: 2A0121; TIGR00900 985665016175 putative substrate translocation pore; other site 985665016176 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 985665016177 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 985665016178 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 985665016179 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 985665016180 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 985665016181 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 985665016182 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 985665016183 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 985665016184 Cellulose binding domain; Region: CBM_3; pfam00942 985665016185 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 985665016186 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 985665016187 oligomer interface [polypeptide binding]; other site 985665016188 active site residues [active] 985665016189 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 985665016190 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 985665016191 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 985665016192 DNA binding residues [nucleotide binding] 985665016193 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 985665016194 YwqJ-like deaminase; Region: YwqJ-deaminase; pfam14431 985665016195 Transmembrane protein; Region: Macoilin; pfam09726 985665016196 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 985665016197 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 985665016198 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 985665016199 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 985665016200 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 985665016201 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 985665016202 RDD family; Region: RDD; pfam06271 985665016203 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 985665016204 nucleotide binding site [chemical binding]; other site 985665016205 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 985665016206 active site 985665016207 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 985665016208 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 985665016209 phosphopeptide binding site; other site 985665016210 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 985665016211 phosphopeptide binding site; other site 985665016212 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 985665016213 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 985665016214 HSP70 interaction site [polypeptide binding]; other site 985665016215 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 985665016216 metal ion-dependent adhesion site (MIDAS); other site 985665016217 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 985665016218 Catalytic domain of Protein Kinases; Region: PKc; cd00180 985665016219 active site 985665016220 ATP binding site [chemical binding]; other site 985665016221 substrate binding site [chemical binding]; other site 985665016222 activation loop (A-loop); other site 985665016223 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 985665016224 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 985665016225 putative substrate translocation pore; other site 985665016226 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 985665016227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665016228 active site 985665016229 phosphorylation site [posttranslational modification] 985665016230 intermolecular recognition site; other site 985665016231 dimerization interface [polypeptide binding]; other site 985665016232 LytTr DNA-binding domain; Region: LytTR; smart00850 985665016233 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 985665016234 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 985665016235 GAF domain; Region: GAF_3; pfam13492 985665016236 Histidine kinase; Region: His_kinase; pfam06580 985665016237 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665016238 ATP binding site [chemical binding]; other site 985665016239 Mg2+ binding site [ion binding]; other site 985665016240 G-X-G motif; other site 985665016241 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 985665016242 putative dimer interface [polypeptide binding]; other site 985665016243 catalytic triad [active] 985665016244 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 985665016245 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 985665016246 5S rRNA interface [nucleotide binding]; other site 985665016247 CTC domain interface [polypeptide binding]; other site 985665016248 L16 interface [polypeptide binding]; other site 985665016249 pullulanase, type I; Region: pulA_typeI; TIGR02104 985665016250 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 985665016251 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 985665016252 Ca binding site [ion binding]; other site 985665016253 active site 985665016254 catalytic site [active] 985665016255 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 985665016256 carbohydrate binding site [chemical binding]; other site 985665016257 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665016258 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665016259 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665016260 Walker A/P-loop; other site 985665016261 ATP binding site [chemical binding]; other site 985665016262 Q-loop/lid; other site 985665016263 ABC transporter signature motif; other site 985665016264 Walker B; other site 985665016265 D-loop; other site 985665016266 H-loop/switch region; other site 985665016267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 985665016268 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 985665016269 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665016270 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665016271 Walker A/P-loop; other site 985665016272 ATP binding site [chemical binding]; other site 985665016273 Q-loop/lid; other site 985665016274 ABC transporter signature motif; other site 985665016275 Walker B; other site 985665016276 D-loop; other site 985665016277 H-loop/switch region; other site 985665016278 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 985665016279 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 985665016280 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 985665016281 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 985665016282 active site 985665016283 phosphorylation site [posttranslational modification] 985665016284 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 985665016285 HTH domain; Region: HTH_11; pfam08279 985665016286 PRD domain; Region: PRD; pfam00874 985665016287 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 985665016288 active site 985665016289 P-loop; other site 985665016290 phosphorylation site [posttranslational modification] 985665016291 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 985665016292 active site 985665016293 phosphorylation site [posttranslational modification] 985665016294 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 985665016295 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 985665016296 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 985665016297 active site 985665016298 P-loop; other site 985665016299 phosphorylation site [posttranslational modification] 985665016300 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 985665016301 lipoyl attachment site [posttranslational modification]; other site 985665016302 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 985665016303 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 985665016304 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 985665016305 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 985665016306 tetramer interface [polypeptide binding]; other site 985665016307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665016308 catalytic residue [active] 985665016309 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 985665016310 tetramer interface [polypeptide binding]; other site 985665016311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 985665016312 catalytic residue [active] 985665016313 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 985665016314 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 985665016315 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 985665016316 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 985665016317 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 985665016318 dimerization domain swap beta strand [polypeptide binding]; other site 985665016319 regulatory protein interface [polypeptide binding]; other site 985665016320 active site 985665016321 regulatory phosphorylation site [posttranslational modification]; other site 985665016322 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 985665016323 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 985665016324 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 985665016325 active site turn [active] 985665016326 phosphorylation site [posttranslational modification] 985665016327 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 985665016328 HPr interaction site; other site 985665016329 glycerol kinase (GK) interaction site [polypeptide binding]; other site 985665016330 active site 985665016331 phosphorylation site [posttranslational modification] 985665016332 transcriptional antiterminator BglG; Provisional; Region: PRK09772 985665016333 CAT RNA binding domain; Region: CAT_RBD; pfam03123 985665016334 PRD domain; Region: PRD; pfam00874 985665016335 PRD domain; Region: PRD; pfam00874 985665016336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 985665016337 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 985665016338 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 985665016339 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 985665016340 dimer interface [polypeptide binding]; other site 985665016341 active site 985665016342 metal binding site [ion binding]; metal-binding site 985665016343 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 985665016344 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 985665016345 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 985665016346 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 985665016347 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 985665016348 NAD binding site [chemical binding]; other site 985665016349 homodimer interface [polypeptide binding]; other site 985665016350 active site 985665016351 substrate binding site [chemical binding]; other site 985665016352 galactokinase; Provisional; Region: PRK05322 985665016353 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 985665016354 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 985665016355 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 985665016356 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 985665016357 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665016358 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 985665016359 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 985665016360 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 985665016361 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 985665016362 active site 985665016363 catalytic tetrad [active] 985665016364 NAD-dependent deacetylase; Provisional; Region: PRK00481 985665016365 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 985665016366 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 985665016367 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 985665016368 motif II; other site 985665016369 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 985665016370 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 985665016371 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 985665016372 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 985665016373 General stress protein [General function prediction only]; Region: GsiB; COG3729 985665016374 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 985665016375 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 985665016376 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 985665016377 NodB motif; other site 985665016378 putative active site [active] 985665016379 putative catalytic site [active] 985665016380 putative Zn binding site [ion binding]; other site 985665016381 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 985665016382 Domain of unknown function DUF20; Region: UPF0118; pfam01594 985665016383 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 985665016384 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 985665016385 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 985665016386 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 985665016387 dimerization interface [polypeptide binding]; other site 985665016388 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 985665016389 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665016390 dimer interface [polypeptide binding]; other site 985665016391 putative CheW interface [polypeptide binding]; other site 985665016392 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 985665016393 Peptidase family U32; Region: Peptidase_U32; pfam01136 985665016394 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 985665016395 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 985665016396 Peptidase family U32; Region: Peptidase_U32; pfam01136 985665016397 YceG-like family; Region: YceG; pfam02618 985665016398 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 985665016399 dimerization interface [polypeptide binding]; other site 985665016400 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 985665016401 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 985665016402 hypothetical protein; Provisional; Region: PRK05473 985665016403 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 985665016404 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 985665016405 motif 1; other site 985665016406 active site 985665016407 motif 2; other site 985665016408 motif 3; other site 985665016409 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 985665016410 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 985665016411 Domain of unknown function DUF20; Region: UPF0118; pfam01594 985665016412 Cache domain; Region: Cache_1; pfam02743 985665016413 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 985665016414 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 985665016415 dimerization interface [polypeptide binding]; other site 985665016416 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 985665016417 dimer interface [polypeptide binding]; other site 985665016418 putative CheW interface [polypeptide binding]; other site 985665016419 PRC-barrel domain; Region: PRC; pfam05239 985665016420 PRC-barrel domain; Region: PRC; pfam05239 985665016421 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 985665016422 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 985665016423 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 985665016424 catalytic residue [active] 985665016425 Predicted transcriptional regulator [Transcription]; Region: COG1959 985665016426 Transcriptional regulator; Region: Rrf2; pfam02082 985665016427 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 985665016428 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 985665016429 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 985665016430 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 985665016431 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 985665016432 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 985665016433 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 985665016434 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cl00942 985665016435 DCoH dimer interaction site [polypeptide binding]; other site 985665016436 aromatic arch; other site 985665016437 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 985665016438 DCoH tetramer interaction site [polypeptide binding]; other site 985665016439 substrate binding site [chemical binding]; other site 985665016440 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 985665016441 non-specific DNA binding site [nucleotide binding]; other site 985665016442 salt bridge; other site 985665016443 sequence-specific DNA binding site [nucleotide binding]; other site 985665016444 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 985665016445 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 985665016446 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 985665016447 recombination factor protein RarA; Reviewed; Region: PRK13342 985665016448 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 985665016449 Walker A motif; other site 985665016450 ATP binding site [chemical binding]; other site 985665016451 Walker B motif; other site 985665016452 arginine finger; other site 985665016453 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 985665016454 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 985665016455 Part of AAA domain; Region: AAA_19; pfam13245 985665016456 Family description; Region: UvrD_C_2; pfam13538 985665016457 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 985665016458 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 985665016459 [citrate (pro-3S)-lyase] ligase; Region: cit_ly_ligase; TIGR00124 985665016460 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 985665016461 active site 985665016462 nucleotide binding site [chemical binding]; other site 985665016463 HIGH motif; other site 985665016464 KMSKS motif; other site 985665016465 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 985665016466 Malic enzyme, N-terminal domain; Region: malic; pfam00390 985665016467 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 985665016468 putative NAD(P) binding site [chemical binding]; other site 985665016469 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 985665016470 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 985665016471 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 985665016472 citrate lyase subunit gamma; Provisional; Region: PRK13253 985665016473 PAS domain; Region: PAS_10; pfam13596 985665016474 Cache domain; Region: Cache_1; pfam02743 985665016475 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 985665016476 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 985665016477 dimer interface [polypeptide binding]; other site 985665016478 phosphorylation site [posttranslational modification] 985665016479 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 985665016480 ATP binding site [chemical binding]; other site 985665016481 Mg2+ binding site [ion binding]; other site 985665016482 G-X-G motif; other site 985665016483 Response regulator receiver domain; Region: Response_reg; pfam00072 985665016484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665016485 active site 985665016486 phosphorylation site [posttranslational modification] 985665016487 intermolecular recognition site; other site 985665016488 dimerization interface [polypeptide binding]; other site 985665016489 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 985665016490 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 985665016491 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 985665016492 active site 985665016493 phosphorylation site [posttranslational modification] 985665016494 intermolecular recognition site; other site 985665016495 dimerization interface [polypeptide binding]; other site 985665016496 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 985665016497 DNA binding site [nucleotide binding] 985665016498 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 985665016499 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 985665016500 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 985665016501 Walker A/P-loop; other site 985665016502 ATP binding site [chemical binding]; other site 985665016503 Q-loop/lid; other site 985665016504 ABC transporter signature motif; other site 985665016505 Walker B; other site 985665016506 D-loop; other site 985665016507 H-loop/switch region; other site 985665016508 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 985665016509 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 985665016510 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 985665016511 putative ATP binding site [chemical binding]; other site 985665016512 putative substrate interface [chemical binding]; other site 985665016513 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 985665016514 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 985665016515 dimer interface [polypeptide binding]; other site 985665016516 anticodon binding site; other site 985665016517 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 985665016518 homodimer interface [polypeptide binding]; other site 985665016519 motif 1; other site 985665016520 active site 985665016521 motif 2; other site 985665016522 GAD domain; Region: GAD; pfam02938 985665016523 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 985665016524 motif 3; other site 985665016525 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 985665016526 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 985665016527 dimer interface [polypeptide binding]; other site 985665016528 motif 1; other site 985665016529 active site 985665016530 motif 2; other site 985665016531 motif 3; other site 985665016532 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 985665016533 anticodon binding site; other site 985665016534 intracellular protease, PfpI family; Region: PfpI; TIGR01382 985665016535 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 985665016536 proposed catalytic triad [active] 985665016537 conserved cys residue [active] 985665016538 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 985665016539 putative active site [active] 985665016540 dimerization interface [polypeptide binding]; other site 985665016541 putative tRNAtyr binding site [nucleotide binding]; other site 985665016542 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 985665016543 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 985665016544 Zn2+ binding site [ion binding]; other site 985665016545 Mg2+ binding site [ion binding]; other site 985665016546 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 985665016547 synthetase active site [active] 985665016548 NTP binding site [chemical binding]; other site 985665016549 metal binding site [ion binding]; metal-binding site 985665016550 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 985665016551 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 985665016552 uracil transporter; Provisional; Region: PRK10720 985665016553 potential frameshift: common BLAST hit: gi|310643544|ref|YP_003948302.1| methyl-accepting chemotaxis sensory transducer 985665016554 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 985665016555 active site 985665016556 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 985665016557 DHH family; Region: DHH; pfam01368 985665016558 DHHA1 domain; Region: DHHA1; pfam02272 985665016559 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 985665016560 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 985665016561 Cation efflux family; Region: Cation_efflux; cl00316 985665016562 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 985665016563 Protein export membrane protein; Region: SecD_SecF; pfam02355 985665016564 protein-export membrane protein SecD; Region: secD; TIGR01129 985665016565 Class I aldolases; Region: Aldolase_Class_I; cl17187 985665016566 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 985665016567 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 985665016568 stage V sporulation protein B; Region: spore_V_B; TIGR02900 985665016569 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 985665016570 Predicted membrane protein [Function unknown]; Region: COG2323 985665016571 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 985665016572 Preprotein translocase subunit; Region: YajC; pfam02699 985665016573 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 985665016574 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 985665016575 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 985665016576 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 985665016577 Sporulation related domain; Region: SPOR; cl10051 985665016578 Stage II sporulation protein; Region: SpoIID; pfam08486 985665016579 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 985665016580 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 985665016581 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 985665016582 Walker A motif; other site 985665016583 ATP binding site [chemical binding]; other site 985665016584 Walker B motif; other site 985665016585 arginine finger; other site 985665016586 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 985665016587 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 985665016588 RuvA N terminal domain; Region: RuvA_N; pfam01330 985665016589 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 985665016590 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 985665016591 active site 985665016592 putative DNA-binding cleft [nucleotide binding]; other site 985665016593 dimer interface [polypeptide binding]; other site 985665016594 BofC C-terminal domain; Region: BofC_C; pfam08955