-- dump date 20140619_125944 -- class Genbank::misc_feature -- table misc_feature_note -- id note 649349000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 649349000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 649349000003 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 649349000004 Walker A motif; other site 649349000005 ATP binding site [chemical binding]; other site 649349000006 Walker B motif; other site 649349000007 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 649349000008 arginine finger; other site 649349000009 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 649349000010 DnaA box-binding interface [nucleotide binding]; other site 649349000011 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 649349000012 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 649349000013 putative NAD(P) binding site [chemical binding]; other site 649349000014 catalytic Zn binding site [ion binding]; other site 649349000015 structural Zn binding site [ion binding]; other site 649349000016 Transcriptional regulators [Transcription]; Region: PurR; COG1609 649349000017 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 649349000018 DNA binding site [nucleotide binding] 649349000019 domain linker motif; other site 649349000020 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 649349000021 dimerization interface [polypeptide binding]; other site 649349000022 ligand binding site [chemical binding]; other site 649349000023 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349000024 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349000025 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349000026 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349000027 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349000028 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349000029 SusD family; Region: SusD; pfam07980 649349000030 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349000031 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349000032 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349000033 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349000034 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349000035 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349000036 SusD family; Region: SusD; pfam07980 649349000037 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 649349000038 Catalytic domain of Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1-like proteins; Region: PI-PLCc_SaPLC1_like; cd08589 649349000039 putative active site [active] 649349000040 catalytic site [active] 649349000041 putative metal binding site [ion binding]; other site 649349000042 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 649349000043 intersubunit interface [polypeptide binding]; other site 649349000044 active site 649349000045 zinc binding site [ion binding]; other site 649349000046 Na+ binding site [ion binding]; other site 649349000047 KduI/IolB family; Region: KduI; pfam04962 649349000048 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 649349000049 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 649349000050 substrate binding site [chemical binding]; other site 649349000051 ATP binding site [chemical binding]; other site 649349000052 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 649349000053 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 649349000054 PYR/PP interface [polypeptide binding]; other site 649349000055 dimer interface [polypeptide binding]; other site 649349000056 TPP binding site [chemical binding]; other site 649349000057 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 649349000058 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 649349000059 TPP-binding site; other site 649349000060 putative transporter; Provisional; Region: PRK10484 649349000061 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 649349000062 Na binding site [ion binding]; other site 649349000063 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 649349000064 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 649349000065 tetrameric interface [polypeptide binding]; other site 649349000066 NAD binding site [chemical binding]; other site 649349000067 catalytic residues [active] 649349000068 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 649349000069 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 649349000070 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349000071 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 649349000072 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349000073 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349000074 putative active site [active] 649349000075 putative NTP binding site [chemical binding]; other site 649349000076 putative nucleic acid binding site [nucleotide binding]; other site 649349000077 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349000078 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349000079 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349000080 putative active site [active] 649349000081 putative NTP binding site [chemical binding]; other site 649349000082 putative nucleic acid binding site [nucleotide binding]; other site 649349000083 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349000084 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349000085 Coenzyme A binding pocket [chemical binding]; other site 649349000086 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 649349000087 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 649349000088 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 649349000089 DinB superfamily; Region: DinB_2; pfam12867 649349000090 dephospho-CoA kinase; Region: TIGR00152 649349000091 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 649349000092 CoA-binding site [chemical binding]; other site 649349000093 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 649349000094 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 649349000095 Probable Catalytic site; other site 649349000096 metal-binding site 649349000097 hypothetical protein; Validated; Region: PRK00153 649349000098 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 649349000099 Peptidase family M28; Region: Peptidase_M28; pfam04389 649349000100 metal binding site [ion binding]; metal-binding site 649349000101 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 649349000102 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 649349000103 CoA binding domain; Region: CoA_binding_2; pfam13380 649349000104 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 649349000105 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 649349000106 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 649349000107 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 649349000108 active site 649349000109 motif I; other site 649349000110 motif II; other site 649349000111 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 649349000112 putative active site pocket [active] 649349000113 4-fold oligomerization interface [polypeptide binding]; other site 649349000114 metal binding residues [ion binding]; metal-binding site 649349000115 3-fold/trimer interface [polypeptide binding]; other site 649349000116 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 649349000117 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 649349000118 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349000119 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 649349000120 DNA binding residues [nucleotide binding] 649349000121 cysteine synthase B; Region: cysM; TIGR01138 649349000122 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 649349000123 dimer interface [polypeptide binding]; other site 649349000124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349000125 catalytic residue [active] 649349000126 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 649349000127 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 649349000128 active site 649349000129 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 649349000130 Domain of unknown function DUF21; Region: DUF21; pfam01595 649349000131 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 649349000132 Transporter associated domain; Region: CorC_HlyC; smart01091 649349000133 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 649349000134 active site 649349000135 Ap6A binding site [chemical binding]; other site 649349000136 nudix motif; other site 649349000137 metal binding site [ion binding]; metal-binding site 649349000138 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 649349000139 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349000140 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 649349000141 putative glycosyl transferase; Provisional; Region: PRK10063 649349000142 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 649349000143 metal-binding site 649349000144 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 649349000145 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 649349000146 Peptidase family M23; Region: Peptidase_M23; pfam01551 649349000147 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349000148 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 649349000149 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 649349000150 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 649349000151 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 649349000152 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 649349000153 inhibitor-cofactor binding pocket; inhibition site 649349000154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349000155 catalytic residue [active] 649349000156 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 649349000157 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 649349000158 Walker A/P-loop; other site 649349000159 ATP binding site [chemical binding]; other site 649349000160 Q-loop/lid; other site 649349000161 ABC transporter signature motif; other site 649349000162 Walker B; other site 649349000163 D-loop; other site 649349000164 H-loop/switch region; other site 649349000165 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 649349000166 putative carbohydrate binding site [chemical binding]; other site 649349000167 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 649349000168 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 649349000169 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 649349000170 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 649349000171 SLBB domain; Region: SLBB; pfam10531 649349000172 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 649349000173 SLBB domain; Region: SLBB; pfam10531 649349000174 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 649349000175 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349000176 ATP binding site [chemical binding]; other site 649349000177 Mg2+ binding site [ion binding]; other site 649349000178 G-X-G motif; other site 649349000179 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 649349000180 ATP binding site [chemical binding]; other site 649349000181 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 649349000182 active site 649349000183 metal binding site [ion binding]; metal-binding site 649349000184 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 649349000185 Chorismate mutase type II; Region: CM_2; smart00830 649349000186 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 649349000187 Prephenate dehydratase; Region: PDT; pfam00800 649349000188 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 649349000189 putative L-Phe binding site [chemical binding]; other site 649349000190 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 649349000191 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 649349000192 active site 649349000193 Riboflavin kinase; Region: Flavokinase; pfam01687 649349000194 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 649349000195 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 649349000196 RNA binding site [nucleotide binding]; other site 649349000197 active site 649349000198 Bacitracin resistance protein BacA; Region: BacA; pfam02673 649349000199 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 649349000200 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 649349000201 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 649349000202 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 649349000203 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 649349000204 putative acyl-acceptor binding pocket; other site 649349000205 Bifunctional nuclease; Region: DNase-RNase; pfam02577 649349000206 UvrB/uvrC motif; Region: UVR; pfam02151 649349000207 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 649349000208 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349000209 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349000210 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 649349000211 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 649349000212 Ligand binding site; other site 649349000213 oligomer interface; other site 649349000214 Response regulator receiver domain; Region: Response_reg; pfam00072 649349000215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349000216 active site 649349000217 phosphorylation site [posttranslational modification] 649349000218 intermolecular recognition site; other site 649349000219 dimerization interface [polypeptide binding]; other site 649349000220 PglZ domain; Region: PglZ; pfam08665 649349000221 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 649349000222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349000223 Walker A/P-loop; other site 649349000224 ATP binding site [chemical binding]; other site 649349000225 Q-loop/lid; other site 649349000226 ABC transporter signature motif; other site 649349000227 Walker B; other site 649349000228 D-loop; other site 649349000229 H-loop/switch region; other site 649349000230 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 649349000231 active site 649349000232 intersubunit interactions; other site 649349000233 catalytic residue [active] 649349000234 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 649349000235 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 649349000236 GIY-YIG motif/motif A; other site 649349000237 active site 649349000238 catalytic site [active] 649349000239 putative DNA binding site [nucleotide binding]; other site 649349000240 metal binding site [ion binding]; metal-binding site 649349000241 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 649349000242 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 649349000243 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 649349000244 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349000245 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349000246 putative active site [active] 649349000247 putative NTP binding site [chemical binding]; other site 649349000248 putative nucleic acid binding site [nucleotide binding]; other site 649349000249 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349000250 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 649349000251 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 649349000252 substrate binding site [chemical binding]; other site 649349000253 ligand binding site [chemical binding]; other site 649349000254 Mitochondrial aconitase A swivel domain. Aconitase (also known as aconitate hydratase and citrate hydro-lyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes...; Region: AcnA_Mitochon_Swivel; cd01578 649349000255 substrate binding site [chemical binding]; other site 649349000256 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 649349000257 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 649349000258 active site 649349000259 interdomain interaction site; other site 649349000260 putative metal-binding site [ion binding]; other site 649349000261 nucleotide binding site [chemical binding]; other site 649349000262 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 649349000263 domain I; other site 649349000264 DNA binding groove [nucleotide binding] 649349000265 phosphate binding site [ion binding]; other site 649349000266 domain II; other site 649349000267 domain III; other site 649349000268 nucleotide binding site [chemical binding]; other site 649349000269 catalytic site [active] 649349000270 domain IV; other site 649349000271 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 649349000272 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 649349000273 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 649349000274 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 649349000275 Histidine kinase; Region: HisKA_3; pfam07730 649349000276 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 649349000277 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 649349000278 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 649349000279 Ligand Binding Site [chemical binding]; other site 649349000280 Molecular Tunnel; other site 649349000281 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 649349000282 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349000283 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 649349000284 active site 649349000285 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349000286 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 649349000287 NAD-dependent deacetylase; Provisional; Region: PRK00481 649349000288 NAD+ binding site [chemical binding]; other site 649349000289 substrate binding site [chemical binding]; other site 649349000290 Zn binding site [ion binding]; other site 649349000291 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 649349000292 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 649349000293 DNA binding residues [nucleotide binding] 649349000294 dimerization interface [polypeptide binding]; other site 649349000295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 649349000296 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349000297 ATP binding site [chemical binding]; other site 649349000298 Mg2+ binding site [ion binding]; other site 649349000299 G-X-G motif; other site 649349000300 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349000301 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349000302 putative active site [active] 649349000303 putative NTP binding site [chemical binding]; other site 649349000304 putative nucleic acid binding site [nucleotide binding]; other site 649349000305 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349000306 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 649349000307 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 649349000308 5S rRNA interface [nucleotide binding]; other site 649349000309 CTC domain interface [polypeptide binding]; other site 649349000310 L16 interface [polypeptide binding]; other site 649349000311 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 649349000312 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 649349000313 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 649349000314 active site 649349000315 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 649349000316 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 649349000317 nudix motif; other site 649349000318 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 649349000319 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 649349000320 ATP binding site [chemical binding]; other site 649349000321 Mg++ binding site [ion binding]; other site 649349000322 motif III; other site 649349000323 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 649349000324 nucleotide binding region [chemical binding]; other site 649349000325 ATP-binding site [chemical binding]; other site 649349000326 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 649349000327 recombinase A; Provisional; Region: recA; PRK09354 649349000328 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 649349000329 hexamer interface [polypeptide binding]; other site 649349000330 Walker A motif; other site 649349000331 ATP binding site [chemical binding]; other site 649349000332 Walker B motif; other site 649349000333 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 649349000334 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 649349000335 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 649349000336 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 649349000337 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 649349000338 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 649349000339 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 649349000340 NAD binding site [chemical binding]; other site 649349000341 putative substrate binding site 2 [chemical binding]; other site 649349000342 putative substrate binding site 1 [chemical binding]; other site 649349000343 active site 649349000344 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 649349000345 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 649349000346 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349000347 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 649349000348 dimer interface [polypeptide binding]; other site 649349000349 phosphorylation site [posttranslational modification] 649349000350 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349000351 ATP binding site [chemical binding]; other site 649349000352 Mg2+ binding site [ion binding]; other site 649349000353 G-X-G motif; other site 649349000354 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 649349000355 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349000356 active site 649349000357 phosphorylation site [posttranslational modification] 649349000358 intermolecular recognition site; other site 649349000359 dimerization interface [polypeptide binding]; other site 649349000360 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 649349000361 DNA binding site [nucleotide binding] 649349000362 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 649349000363 active site residue [active] 649349000364 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 649349000365 catalytic residues [active] 649349000366 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 649349000367 Predicted transporter component [General function prediction only]; Region: COG2391 649349000368 Sulphur transport; Region: Sulf_transp; pfam04143 649349000369 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 649349000370 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 649349000371 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349000372 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349000373 SusD family; Region: SusD; pfam07980 649349000374 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349000375 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349000376 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349000377 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 649349000378 putative substrate binding site [chemical binding]; other site 649349000379 active site 649349000380 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 649349000381 sugar binding site [chemical binding]; other site 649349000382 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 649349000383 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 649349000384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349000385 NAD(P) binding site [chemical binding]; other site 649349000386 active site 649349000387 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349000388 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 649349000389 ligand binding site [chemical binding]; other site 649349000390 flexible hinge region; other site 649349000391 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 649349000392 putative hydrophobic ligand binding site [chemical binding]; other site 649349000393 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349000394 Helix-turn-helix domain; Region: HTH_18; pfam12833 649349000395 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 649349000396 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 649349000397 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 649349000398 DNA binding site [nucleotide binding] 649349000399 active site 649349000400 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 649349000401 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 649349000402 Methyltransferase domain; Region: Methyltransf_31; pfam13847 649349000403 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 649349000404 S-adenosylmethionine binding site [chemical binding]; other site 649349000405 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 649349000406 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 649349000407 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 649349000408 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 649349000409 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 649349000410 S-adenosylmethionine binding site [chemical binding]; other site 649349000411 Transposase IS200 like; Region: Y1_Tnp; pfam01797 649349000412 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 649349000413 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 649349000414 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 649349000415 ATP binding site [chemical binding]; other site 649349000416 putative Mg++ binding site [ion binding]; other site 649349000417 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 649349000418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349000419 protochlorophyllide reductase; Region: PLN00015 649349000420 NAD(P) binding site [chemical binding]; other site 649349000421 active site 649349000422 SnoaL-like domain; Region: SnoaL_2; pfam12680 649349000423 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 649349000424 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 649349000425 active site 649349000426 metal binding site [ion binding]; metal-binding site 649349000427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349000428 NADH(P)-binding; Region: NAD_binding_10; pfam13460 649349000429 NAD(P) binding site [chemical binding]; other site 649349000430 active site 649349000431 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 649349000432 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 649349000433 active site 649349000434 catalytic site [active] 649349000435 substrate binding site [chemical binding]; other site 649349000436 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 649349000437 Dimer interface [polypeptide binding]; other site 649349000438 BRCT sequence motif; other site 649349000439 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 649349000440 active site 649349000441 Fic/DOC family; Region: Fic; cl00960 649349000442 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 649349000443 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 649349000444 FIC domain binding interface [polypeptide binding]; other site 649349000445 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 649349000446 FeS/SAM binding site; other site 649349000447 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 649349000448 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 649349000449 Int/Topo IB signature motif; other site 649349000450 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 649349000451 dimer interface [polypeptide binding]; other site 649349000452 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 649349000453 ssDNA binding site [nucleotide binding]; other site 649349000454 tetramer (dimer of dimers) interface [polypeptide binding]; other site 649349000455 Domain of unknown function (DUF932); Region: DUF932; pfam06067 649349000456 PRTRC system protein E; Region: PRTRC_E; TIGR03741 649349000457 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 649349000458 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 649349000459 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 649349000460 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 649349000461 ATP binding site [chemical binding]; other site 649349000462 substrate interface [chemical binding]; other site 649349000463 Response regulator receiver domain; Region: Response_reg; pfam00072 649349000464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349000465 active site 649349000466 phosphorylation site [posttranslational modification] 649349000467 intermolecular recognition site; other site 649349000468 dimerization interface [polypeptide binding]; other site 649349000469 glucosamine-fructose-6-phosphate aminotransferase; Provisional; Region: PTZ00295 649349000470 Helix-turn-helix domain; Region: HTH_17; pfam12728 649349000471 Helix-turn-helix domain; Region: HTH_17; pfam12728 649349000472 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 649349000473 Conjugative transposon protein TraO; Region: TraO; pfam10626 649349000474 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 649349000475 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 649349000476 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 649349000477 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 649349000478 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 649349000479 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 649349000480 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 649349000481 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 649349000482 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 649349000483 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349000484 Walker A/P-loop; other site 649349000485 ATP binding site [chemical binding]; other site 649349000486 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 649349000487 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 649349000488 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 649349000489 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 649349000490 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 649349000491 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 649349000492 replicative DNA helicase; Provisional; Region: PRK05973 649349000493 YWFCY protein; Region: YWFCY; pfam14293 649349000494 AAA-like domain; Region: AAA_10; pfam12846 649349000495 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 649349000496 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 649349000497 S-adenosylmethionine binding site [chemical binding]; other site 649349000498 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 649349000499 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 649349000500 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 649349000501 helicase superfamily c-terminal domain; Region: HELICc; smart00490 649349000502 ATP-binding site [chemical binding]; other site 649349000503 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 649349000504 ORF6N domain; Region: ORF6N; pfam10543 649349000505 DNA topoisomerase III; Provisional; Region: PRK07726 649349000506 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 649349000507 active site 649349000508 putative interdomain interaction site [polypeptide binding]; other site 649349000509 putative metal-binding site [ion binding]; other site 649349000510 putative nucleotide binding site [chemical binding]; other site 649349000511 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 649349000512 domain I; other site 649349000513 DNA binding groove [nucleotide binding] 649349000514 phosphate binding site [ion binding]; other site 649349000515 domain II; other site 649349000516 domain III; other site 649349000517 nucleotide binding site [chemical binding]; other site 649349000518 catalytic site [active] 649349000519 domain IV; other site 649349000520 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 649349000521 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 649349000522 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 649349000523 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 649349000524 Helix-turn-helix domain; Region: HTH_17; pfam12728 649349000525 Helix-turn-helix domain; Region: HTH_17; pfam12728 649349000526 RteC protein; Region: RteC; pfam09357 649349000527 Helix-turn-helix domain; Region: HTH_18; pfam12833 649349000528 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349000529 short chain dehydrogenase; Provisional; Region: PRK12937 649349000530 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 649349000531 NADP binding site [chemical binding]; other site 649349000532 homodimer interface [polypeptide binding]; other site 649349000533 active site 649349000534 substrate binding site [chemical binding]; other site 649349000535 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 649349000536 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 649349000537 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 649349000538 NADP binding site [chemical binding]; other site 649349000539 homodimer interface [polypeptide binding]; other site 649349000540 active site 649349000541 substrate binding site [chemical binding]; other site 649349000542 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 649349000543 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 649349000544 putative NAD(P) binding site [chemical binding]; other site 649349000545 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349000546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349000547 NADH(P)-binding; Region: NAD_binding_10; pfam13460 649349000548 NAD(P) binding site [chemical binding]; other site 649349000549 active site 649349000550 Helix-turn-helix domain; Region: HTH_18; pfam12833 649349000551 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349000552 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 649349000553 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 649349000554 active site 649349000555 catalytic tetrad [active] 649349000556 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349000557 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349000558 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349000559 Uncharacterized conserved protein [Function unknown]; Region: COG1359 649349000560 Uncharacterized conserved protein [Function unknown]; Region: COG1359 649349000561 short chain dehydrogenase; Provisional; Region: PRK06180 649349000562 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 649349000563 NADP binding site [chemical binding]; other site 649349000564 active site 649349000565 steroid binding site; other site 649349000566 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 649349000567 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 649349000568 active site 649349000569 catalytic tetrad [active] 649349000570 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 649349000571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349000572 NAD(P) binding site [chemical binding]; other site 649349000573 active site 649349000574 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 649349000575 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 649349000576 active site 649349000577 catalytic tetrad [active] 649349000578 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 649349000579 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 649349000580 putative active site [active] 649349000581 putative FMN binding site [chemical binding]; other site 649349000582 putative substrate binding site [chemical binding]; other site 649349000583 putative catalytic residue [active] 649349000584 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 649349000585 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 649349000586 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 649349000587 putative NAD(P) binding site [chemical binding]; other site 649349000588 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349000589 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 649349000590 classical (c) SDRs; Region: SDR_c; cd05233 649349000591 NAD(P) binding site [chemical binding]; other site 649349000592 active site 649349000593 RteC protein; Region: RteC; pfam09357 649349000594 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 649349000595 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 649349000596 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349000597 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 649349000598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349000599 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349000600 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349000601 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 649349000602 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 649349000603 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 649349000604 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 649349000605 NAD(P) binding site [chemical binding]; other site 649349000606 catalytic residues [active] 649349000607 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 649349000608 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 649349000609 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 649349000610 intersubunit interface [polypeptide binding]; other site 649349000611 active site 649349000612 catalytic residue [active] 649349000613 phosphopentomutase; Provisional; Region: PRK05362 649349000614 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 649349000615 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 649349000616 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 649349000617 ATP-grasp domain; Region: ATP-grasp_4; cl17255 649349000618 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 649349000619 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 649349000620 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 649349000621 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 649349000622 ATP-grasp domain; Region: ATP-grasp_4; cl17255 649349000623 AAA domain; Region: AAA_30; pfam13604 649349000624 Family description; Region: UvrD_C_2; pfam13538 649349000625 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 649349000626 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 649349000627 NAD(P) binding site [chemical binding]; other site 649349000628 catalytic residues [active] 649349000629 Rrf2 family protein; Region: rrf2_super; TIGR00738 649349000630 Transcriptional regulator; Region: Rrf2; pfam02082 649349000631 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 649349000632 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 649349000633 S-adenosylmethionine binding site [chemical binding]; other site 649349000634 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 649349000635 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_14; cd12179 649349000636 putative ligand binding site [chemical binding]; other site 649349000637 putative NAD binding site [chemical binding]; other site 649349000638 catalytic site [active] 649349000639 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 649349000640 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 649349000641 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 649349000642 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 649349000643 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 649349000644 Substrate-binding site [chemical binding]; other site 649349000645 Substrate specificity [chemical binding]; other site 649349000646 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 649349000647 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 649349000648 ADP-ribose binding site [chemical binding]; other site 649349000649 dimer interface [polypeptide binding]; other site 649349000650 active site 649349000651 nudix motif; other site 649349000652 metal binding site [ion binding]; metal-binding site 649349000653 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 649349000654 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 649349000655 active site residue [active] 649349000656 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 649349000657 active site residue [active] 649349000658 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 649349000659 exopolyphosphatase; Region: exo_poly_only; TIGR03706 649349000660 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 649349000661 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 649349000662 Domain of unknown function (DUF814); Region: DUF814; pfam05670 649349000663 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 649349000664 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cl01244 649349000665 cofactor binding site; other site 649349000666 metal binding site [ion binding]; metal-binding site 649349000667 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 649349000668 classical (c) SDRs; Region: SDR_c; cd05233 649349000669 NAD(P) binding site [chemical binding]; other site 649349000670 active site 649349000671 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 649349000672 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 649349000673 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 649349000674 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 649349000675 homotrimer interaction site [polypeptide binding]; other site 649349000676 zinc binding site [ion binding]; other site 649349000677 CDP-binding sites; other site 649349000678 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 649349000679 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 649349000680 dimer interface [polypeptide binding]; other site 649349000681 active site 649349000682 catalytic residue [active] 649349000683 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 649349000684 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 649349000685 active site 649349000686 aldehyde dehydrogenase family 7 member; Region: PLN02315 649349000687 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 649349000688 tetrameric interface [polypeptide binding]; other site 649349000689 NAD binding site [chemical binding]; other site 649349000690 catalytic residues [active] 649349000691 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cd10981 649349000692 Zn binding site [ion binding]; other site 649349000693 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 649349000694 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 649349000695 NodB motif; other site 649349000696 active site 649349000697 catalytic site [active] 649349000698 metal binding site [ion binding]; metal-binding site 649349000699 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 649349000700 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 649349000701 active site 649349000702 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 649349000703 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 649349000704 active site 649349000705 putative DNA-binding cleft [nucleotide binding]; other site 649349000706 dimer interface [polypeptide binding]; other site 649349000707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349000708 Transposase; Region: HTH_Tnp_1; pfam01527 649349000709 Two component regulator propeller; Region: Reg_prop; pfam07494 649349000710 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 649349000711 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 649349000712 putative ADP-binding pocket [chemical binding]; other site 649349000713 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 649349000714 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 649349000715 active site 649349000716 motif I; other site 649349000717 motif II; other site 649349000718 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 649349000719 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349000720 Transposase; Region: HTH_Tnp_1; cl17663 649349000721 IS2 transposase TnpB; Reviewed; Region: PRK09409 649349000722 HTH-like domain; Region: HTH_21; pfam13276 649349000723 Integrase core domain; Region: rve; pfam00665 649349000724 Integrase core domain; Region: rve_3; pfam13683 649349000725 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 649349000726 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 649349000727 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349000728 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 649349000729 dimer interface [polypeptide binding]; other site 649349000730 phosphorylation site [posttranslational modification] 649349000731 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349000732 ATP binding site [chemical binding]; other site 649349000733 Mg2+ binding site [ion binding]; other site 649349000734 G-X-G motif; other site 649349000735 Response regulator receiver domain; Region: Response_reg; pfam00072 649349000736 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349000737 active site 649349000738 phosphorylation site [posttranslational modification] 649349000739 intermolecular recognition site; other site 649349000740 dimerization interface [polypeptide binding]; other site 649349000741 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349000742 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349000743 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349000744 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349000745 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349000746 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349000747 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349000748 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349000749 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349000750 SusD family; Region: SusD; pfam07980 649349000751 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 649349000752 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 649349000753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 649349000754 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 649349000755 Putative esterase; Region: Esterase; pfam00756 649349000756 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 649349000757 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 649349000758 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 649349000759 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 649349000760 Putative esterase; Region: Esterase; pfam00756 649349000761 S-formylglutathione hydrolase; Region: PLN02442 649349000762 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 649349000763 Citrate transporter; Region: CitMHS; pfam03600 649349000764 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 649349000765 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349000766 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349000767 Cupin domain; Region: Cupin_2; pfam07883 649349000768 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 649349000769 Predicted flavoprotein [General function prediction only]; Region: COG0431 649349000770 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 649349000771 YceI-like domain; Region: YceI; pfam04264 649349000772 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 649349000773 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 649349000774 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349000775 active site 649349000776 phosphorylation site [posttranslational modification] 649349000777 intermolecular recognition site; other site 649349000778 dimerization interface [polypeptide binding]; other site 649349000779 LytTr DNA-binding domain; Region: LytTR; smart00850 649349000780 Histidine kinase; Region: His_kinase; pfam06580 649349000781 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349000782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349000783 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349000784 Coenzyme A binding pocket [chemical binding]; other site 649349000785 MarR family; Region: MarR_2; pfam12802 649349000786 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 649349000787 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349000788 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 649349000789 ligand binding site [chemical binding]; other site 649349000790 flexible hinge region; other site 649349000791 Protein of unknown function, DUF486; Region: DUF486; cl01236 649349000792 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 649349000793 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 649349000794 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 649349000795 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349000796 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 649349000797 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 649349000798 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 649349000799 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 649349000800 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 649349000801 Beta-Casp domain; Region: Beta-Casp; smart01027 649349000802 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 649349000803 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 649349000804 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 649349000805 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 649349000806 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 649349000807 motif II; other site 649349000808 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 649349000809 Peptidase family M50; Region: Peptidase_M50; pfam02163 649349000810 active site 649349000811 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 649349000812 putative substrate binding region [chemical binding]; other site 649349000813 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 649349000814 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 649349000815 putative acyl-acceptor binding pocket; other site 649349000816 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 649349000817 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 649349000818 homodimer interface [polypeptide binding]; other site 649349000819 substrate-cofactor binding pocket; other site 649349000820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349000821 catalytic residue [active] 649349000822 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 649349000823 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 649349000824 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 649349000825 active site 649349000826 HIGH motif; other site 649349000827 dimer interface [polypeptide binding]; other site 649349000828 KMSKS motif; other site 649349000829 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 649349000830 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 649349000831 active site 649349000832 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 649349000833 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 649349000834 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 649349000835 active site 649349000836 catalytic tetrad [active] 649349000837 Domain of unknown function, B. Theta Gene description (DUF3871); Region: DUF3871; pfam12987 649349000838 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 649349000839 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 649349000840 Transposase; Region: HTH_Tnp_1; pfam01527 649349000841 Rrf2 family protein; Region: rrf2_super; TIGR00738 649349000842 Transcriptional regulator; Region: Rrf2; pfam02082 649349000843 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 649349000844 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 649349000845 Low-spin heme binding site [chemical binding]; other site 649349000846 D-pathway; other site 649349000847 Putative water exit pathway; other site 649349000848 Binuclear center (active site) [active] 649349000849 K-pathway; other site 649349000850 Putative proton exit pathway; other site 649349000851 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 649349000852 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 649349000853 Cytochrome c; Region: Cytochrom_C; pfam00034 649349000854 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 649349000855 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 649349000856 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 649349000857 heme-binding site [chemical binding]; other site 649349000858 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 649349000859 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 649349000860 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 649349000861 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 649349000862 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 649349000863 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 649349000864 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 649349000865 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 649349000866 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 649349000867 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 649349000868 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 649349000869 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 649349000870 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 649349000871 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 649349000872 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 649349000873 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349000874 Coenzyme A binding pocket [chemical binding]; other site 649349000875 Domain of unknown function (DUF303); Region: DUF303; pfam03629 649349000876 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 649349000877 active site 649349000878 catalytic residues [active] 649349000879 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 649349000880 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 649349000881 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 649349000882 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 649349000883 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349000884 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349000885 SusD family; Region: SusD; pfam07980 649349000886 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349000887 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349000888 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349000889 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349000890 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 649349000891 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 649349000892 Two component regulator propeller; Region: Reg_prop; pfam07494 649349000893 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 649349000894 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349000895 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 649349000896 dimer interface [polypeptide binding]; other site 649349000897 phosphorylation site [posttranslational modification] 649349000898 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349000899 ATP binding site [chemical binding]; other site 649349000900 Mg2+ binding site [ion binding]; other site 649349000901 G-X-G motif; other site 649349000902 Response regulator receiver domain; Region: Response_reg; pfam00072 649349000903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349000904 active site 649349000905 phosphorylation site [posttranslational modification] 649349000906 intermolecular recognition site; other site 649349000907 dimerization interface [polypeptide binding]; other site 649349000908 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349000909 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349000910 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 649349000911 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 649349000912 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 649349000913 RibD C-terminal domain; Region: RibD_C; cl17279 649349000914 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349000915 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349000916 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349000917 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349000918 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 649349000919 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349000920 SusD family; Region: SusD; pfam07980 649349000921 Bacillus subtilis YvnB and related proteins, metallophosphatase domain; Region: MPP_YvnB; cd07399 649349000922 putative active site [active] 649349000923 putative metal binding site [ion binding]; other site 649349000924 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349000925 Major Facilitator Superfamily; Region: MFS_1; pfam07690 649349000926 putative substrate translocation pore; other site 649349000927 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 649349000928 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 649349000929 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 649349000930 putative catalytic site [active] 649349000931 putative metal binding site [ion binding]; other site 649349000932 putative phosphate binding site [ion binding]; other site 649349000933 polyol permease family; Region: 2A0118; TIGR00897 649349000934 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349000935 putative substrate translocation pore; other site 649349000936 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 649349000937 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 649349000938 putative ligand binding site [chemical binding]; other site 649349000939 putative NAD binding site [chemical binding]; other site 649349000940 catalytic site [active] 649349000941 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 649349000942 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 649349000943 nucleotide binding site [chemical binding]; other site 649349000944 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 649349000945 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 649349000946 nucleotide binding site [chemical binding]; other site 649349000947 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 649349000948 catalytic core [active] 649349000949 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 649349000950 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 649349000951 putative active site [active] 649349000952 catalytic site [active] 649349000953 putative metal binding site [ion binding]; other site 649349000954 oligomer interface [polypeptide binding]; other site 649349000955 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 649349000956 active site 649349000957 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 649349000958 substrate binding site [chemical binding]; other site 649349000959 dimer interface [polypeptide binding]; other site 649349000960 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 649349000961 ATP binding site [chemical binding]; other site 649349000962 NH_2: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_2; cd02652 649349000963 active site 649349000964 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349000965 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349000966 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349000967 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349000968 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349000969 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349000970 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 649349000971 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 649349000972 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 649349000973 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 649349000974 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 649349000975 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 649349000976 motif II; other site 649349000977 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 649349000978 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 649349000979 substrate binding site [chemical binding]; other site 649349000980 dimer interface [polypeptide binding]; other site 649349000981 ATP binding site [chemical binding]; other site 649349000982 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 649349000983 thiamine phosphate binding site [chemical binding]; other site 649349000984 active site 649349000985 pyrophosphate binding site [ion binding]; other site 649349000986 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 649349000987 substrate binding site [chemical binding]; other site 649349000988 multimerization interface [polypeptide binding]; other site 649349000989 ATP binding site [chemical binding]; other site 649349000990 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 649349000991 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 649349000992 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 649349000993 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 649349000994 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 649349000995 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 649349000996 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 649349000997 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 649349000998 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 649349000999 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 649349001000 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 649349001001 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349001002 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349001003 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 649349001004 DNA-binding site [nucleotide binding]; DNA binding site 649349001005 RNA-binding motif; other site 649349001006 helicase 45; Provisional; Region: PTZ00424 649349001007 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 649349001008 ATP binding site [chemical binding]; other site 649349001009 Mg++ binding site [ion binding]; other site 649349001010 motif III; other site 649349001011 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 649349001012 nucleotide binding region [chemical binding]; other site 649349001013 ATP-binding site [chemical binding]; other site 649349001014 Lipase (class 3). 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...; Region: Lipase_3; cd00519 649349001015 active site flap/lid [active] 649349001016 nucleophilic elbow; other site 649349001017 catalytic triad [active] 649349001018 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349001019 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 649349001020 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349001021 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 649349001022 DNA binding residues [nucleotide binding] 649349001023 Cytochrome c; Region: Cytochrom_C; pfam00034 649349001024 YceI-like domain; Region: YceI; pfam04264 649349001025 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 649349001026 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 649349001027 active site 649349001028 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 649349001029 UbiA prenyltransferase family; Region: UbiA; pfam01040 649349001030 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 649349001031 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 649349001032 active site 649349001033 metal binding site [ion binding]; metal-binding site 649349001034 Uncharacterized conserved protein [Function unknown]; Region: COG3379 649349001035 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 649349001036 SnoaL-like domain; Region: SnoaL_2; pfam12680 649349001037 Predicted transcriptional regulators [Transcription]; Region: COG1733 649349001038 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 649349001039 SnoaL-like domain; Region: SnoaL_2; pfam12680 649349001040 Predicted transcriptional regulators [Transcription]; Region: COG1733 649349001041 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 649349001042 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 649349001043 non-specific DNA binding site [nucleotide binding]; other site 649349001044 salt bridge; other site 649349001045 sequence-specific DNA binding site [nucleotide binding]; other site 649349001046 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349001047 ATP binding site [chemical binding]; other site 649349001048 Mg2+ binding site [ion binding]; other site 649349001049 G-X-G motif; other site 649349001050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349001051 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349001052 ATP binding site [chemical binding]; other site 649349001053 Mg2+ binding site [ion binding]; other site 649349001054 G-X-G motif; other site 649349001055 Methyltransferase domain; Region: Methyltransf_26; pfam13659 649349001056 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349001057 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 649349001058 Transposase; Region: HTH_Tnp_1; cl17663 649349001059 HTH-like domain; Region: HTH_21; pfam13276 649349001060 Integrase core domain; Region: rve; pfam00665 649349001061 Integrase core domain; Region: rve_3; pfam13683 649349001062 RibD C-terminal domain; Region: RibD_C; cl17279 649349001063 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 649349001064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 649349001065 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 649349001066 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 649349001067 DoxX-like family; Region: DoxX_2; pfam13564 649349001068 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 649349001069 hydrophobic ligand binding site; other site 649349001070 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 649349001071 dimerization interface [polypeptide binding]; other site 649349001072 putative DNA binding site [nucleotide binding]; other site 649349001073 putative Zn2+ binding site [ion binding]; other site 649349001074 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 649349001075 S-adenosylmethionine binding site [chemical binding]; other site 649349001076 Abi-like protein; Region: Abi_2; pfam07751 649349001077 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349001078 Transposase; Region: HTH_Tnp_1; pfam01527 649349001079 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349001080 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349001081 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 649349001082 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 649349001083 Transposase IS200 like; Region: Y1_Tnp; pfam01797 649349001084 TIR domain; Region: TIR_2; pfam13676 649349001085 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 649349001086 active site 649349001087 homodimer interface [polypeptide binding]; other site 649349001088 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 649349001089 TPR motif; other site 649349001090 binding surface 649349001091 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 649349001092 Ligand binding site [chemical binding]; other site 649349001093 Electron transfer flavoprotein domain; Region: ETF; pfam01012 649349001094 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 649349001095 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 649349001096 Ligand Binding Site [chemical binding]; other site 649349001097 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 649349001098 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 649349001099 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 649349001100 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349001101 ligand binding site [chemical binding]; other site 649349001102 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 649349001103 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 649349001104 Ligand binding site; other site 649349001105 Putative Catalytic site; other site 649349001106 DXD motif; other site 649349001107 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 649349001108 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 649349001109 active site 649349001110 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 649349001111 lipoyl attachment site [posttranslational modification]; other site 649349001112 dihydroorotase; Validated; Region: pyrC; PRK09357 649349001113 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 649349001114 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 649349001115 active site 649349001116 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 649349001117 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 649349001118 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 649349001119 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 649349001120 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 649349001121 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 649349001122 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 649349001123 substrate binding site; other site 649349001124 dimer interface; other site 649349001125 membrane ATPase/protein kinase; Provisional; Region: PRK09435 649349001126 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 649349001127 Walker A; other site 649349001128 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 649349001129 G4 box; other site 649349001130 G5 box; other site 649349001131 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 649349001132 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 649349001133 active site 649349001134 substrate-binding site [chemical binding]; other site 649349001135 metal-binding site [ion binding] 649349001136 ATP binding site [chemical binding]; other site 649349001137 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 649349001138 Predicted flavoprotein [General function prediction only]; Region: COG0431 649349001139 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 649349001140 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 649349001141 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 649349001142 EamA-like transporter family; Region: EamA; pfam00892 649349001143 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 649349001144 EamA-like transporter family; Region: EamA; pfam00892 649349001145 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 649349001146 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 649349001147 active site 649349001148 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 649349001149 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349001150 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 649349001151 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349001152 Coenzyme A binding pocket [chemical binding]; other site 649349001153 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 649349001154 Ribosome-binding factor A; Region: RBFA; pfam02033 649349001155 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 649349001156 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 649349001157 FtsX-like permease family; Region: FtsX; pfam02687 649349001158 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 649349001159 Peptidase family M1; Region: Peptidase_M1; pfam01433 649349001160 Zn binding site [ion binding]; other site 649349001161 HEAT repeats; Region: HEAT_2; pfam13646 649349001162 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 649349001163 Radical SAM superfamily; Region: Radical_SAM; pfam04055 649349001164 FeS/SAM binding site; other site 649349001165 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 649349001166 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 649349001167 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 649349001168 ATP binding site [chemical binding]; other site 649349001169 putative Mg++ binding site [ion binding]; other site 649349001170 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 649349001171 nucleotide binding region [chemical binding]; other site 649349001172 ATP-binding site [chemical binding]; other site 649349001173 RQC domain; Region: RQC; pfam09382 649349001174 HRDC domain; Region: HRDC; pfam00570 649349001175 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 649349001176 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 649349001177 putative active site [active] 649349001178 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 649349001179 L-aspartate oxidase; Provisional; Region: PRK06175 649349001180 L-aspartate oxidase; Provisional; Region: PRK09077 649349001181 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 649349001182 PspC domain; Region: PspC; cl00864 649349001183 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 649349001184 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 649349001185 serine O-acetyltransferase; Region: cysE; TIGR01172 649349001186 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 649349001187 trimer interface [polypeptide binding]; other site 649349001188 active site 649349001189 substrate binding site [chemical binding]; other site 649349001190 CoA binding site [chemical binding]; other site 649349001191 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 649349001192 S-adenosylmethionine binding site [chemical binding]; other site 649349001193 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 649349001194 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 649349001195 HIGH motif; other site 649349001196 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 649349001197 active site 649349001198 KMSKS motif; other site 649349001199 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 649349001200 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349001201 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 649349001202 non-specific DNA binding site [nucleotide binding]; other site 649349001203 salt bridge; other site 649349001204 sequence-specific DNA binding site [nucleotide binding]; other site 649349001205 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 649349001206 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 649349001207 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349001208 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 649349001209 DNA binding residues [nucleotide binding] 649349001210 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349001211 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349001212 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349001213 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349001214 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349001215 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349001216 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 649349001217 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 649349001218 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 649349001219 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 649349001220 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 649349001221 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349001222 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 649349001223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349001224 NAD(P) binding site [chemical binding]; other site 649349001225 active site 649349001226 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 649349001227 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 649349001228 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 649349001229 substrate-cofactor binding pocket; other site 649349001230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349001231 catalytic residue [active] 649349001232 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 649349001233 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 649349001234 FtsX-like permease family; Region: FtsX; pfam02687 649349001235 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 649349001236 FtsX-like permease family; Region: FtsX; pfam02687 649349001237 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 649349001238 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 649349001239 Walker A/P-loop; other site 649349001240 ATP binding site [chemical binding]; other site 649349001241 Q-loop/lid; other site 649349001242 ABC transporter signature motif; other site 649349001243 Walker B; other site 649349001244 D-loop; other site 649349001245 H-loop/switch region; other site 649349001246 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349001247 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 649349001248 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349001249 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 649349001250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349001251 active site 649349001252 phosphorylation site [posttranslational modification] 649349001253 intermolecular recognition site; other site 649349001254 dimerization interface [polypeptide binding]; other site 649349001255 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 649349001256 Walker A motif; other site 649349001257 ATP binding site [chemical binding]; other site 649349001258 Walker B motif; other site 649349001259 arginine finger; other site 649349001260 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 649349001261 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 649349001262 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349001263 ATP binding site [chemical binding]; other site 649349001264 Mg2+ binding site [ion binding]; other site 649349001265 G-X-G motif; other site 649349001266 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 649349001267 GAF domain; Region: GAF; pfam01590 649349001268 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 649349001269 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 649349001270 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 649349001271 putative active site [active] 649349001272 heme pocket [chemical binding]; other site 649349001273 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 649349001274 putative active site [active] 649349001275 heme pocket [chemical binding]; other site 649349001276 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 649349001277 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 649349001278 dimer interface [polypeptide binding]; other site 649349001279 phosphorylation site [posttranslational modification] 649349001280 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349001281 ATP binding site [chemical binding]; other site 649349001282 Mg2+ binding site [ion binding]; other site 649349001283 G-X-G motif; other site 649349001284 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 649349001285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349001286 active site 649349001287 phosphorylation site [posttranslational modification] 649349001288 intermolecular recognition site; other site 649349001289 dimerization interface [polypeptide binding]; other site 649349001290 Response regulator receiver domain; Region: Response_reg; pfam00072 649349001291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349001292 active site 649349001293 phosphorylation site [posttranslational modification] 649349001294 intermolecular recognition site; other site 649349001295 dimerization interface [polypeptide binding]; other site 649349001296 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 649349001297 putative binding surface; other site 649349001298 active site 649349001299 Response regulator receiver domain; Region: Response_reg; pfam00072 649349001300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349001301 active site 649349001302 phosphorylation site [posttranslational modification] 649349001303 intermolecular recognition site; other site 649349001304 dimerization interface [polypeptide binding]; other site 649349001305 HEAT repeats; Region: HEAT_2; pfam13646 649349001306 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 649349001307 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 649349001308 DXD motif; other site 649349001309 Sulfatase; Region: Sulfatase; pfam00884 649349001310 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 649349001311 TPR repeat; Region: TPR_11; pfam13414 649349001312 TPR motif; other site 649349001313 binding surface 649349001314 TPR repeat; Region: TPR_11; pfam13414 649349001315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349001316 TIGR01777 family protein; Region: yfcH 649349001317 NAD(P) binding site [chemical binding]; other site 649349001318 active site 649349001319 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 649349001320 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 649349001321 nucleotide binding site [chemical binding]; other site 649349001322 putative NEF/HSP70 interaction site [polypeptide binding]; other site 649349001323 SBD interface [polypeptide binding]; other site 649349001324 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 649349001325 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349001326 ligand binding site [chemical binding]; other site 649349001327 flexible hinge region; other site 649349001328 DinB superfamily; Region: DinB_2; pfam12867 649349001329 YceI-like domain; Region: YceI; pfam04264 649349001330 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 649349001331 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 649349001332 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 649349001333 active site 649349001334 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 649349001335 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 649349001336 putative ADP-binding pocket [chemical binding]; other site 649349001337 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349001338 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 649349001339 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 649349001340 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349001341 active site 649349001342 phosphorylation site [posttranslational modification] 649349001343 intermolecular recognition site; other site 649349001344 dimerization interface [polypeptide binding]; other site 649349001345 LytTr DNA-binding domain; Region: LytTR; smart00850 649349001346 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 649349001347 Helix-turn-helix domain; Region: HTH_28; pfam13518 649349001348 putative transposase OrfB; Reviewed; Region: PHA02517 649349001349 Homeodomain-like domain; Region: HTH_32; pfam13565 649349001350 Integrase core domain; Region: rve; pfam00665 649349001351 Integrase core domain; Region: rve_3; pfam13683 649349001352 Transposase; Region: HTH_Tnp_1; pfam01527 649349001353 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349001354 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 649349001355 active site 649349001356 catalytic residues [active] 649349001357 Transposase; Region: HTH_Tnp_1; pfam01527 649349001358 HTH-like domain; Region: HTH_21; pfam13276 649349001359 Integrase core domain; Region: rve; pfam00665 649349001360 Integrase core domain; Region: rve_3; pfam13683 649349001361 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349001362 Transposase; Region: HTH_Tnp_1; pfam01527 649349001363 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 649349001364 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 649349001365 Multicopper oxidase; Region: Cu-oxidase; pfam00394 649349001366 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 649349001367 Haem-binding domain; Region: Haem_bd; pfam14376 649349001368 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 649349001369 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 649349001370 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 649349001371 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 649349001372 motif II; other site 649349001373 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 649349001374 metal-binding site [ion binding] 649349001375 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 649349001376 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 649349001377 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349001378 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349001379 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349001380 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 649349001381 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 649349001382 catalytic residues [active] 649349001383 catalytic nucleophile [active] 649349001384 Recombinase; Region: Recombinase; pfam07508 649349001385 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 649349001386 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 649349001387 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 649349001388 active site 649349001389 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 649349001390 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 649349001391 inhibitor-cofactor binding pocket; inhibition site 649349001392 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349001393 catalytic residue [active] 649349001394 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 649349001395 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 649349001396 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 649349001397 ligand binding site [chemical binding]; other site 649349001398 membrane protein insertase; Provisional; Region: PRK01318 649349001399 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 649349001400 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 649349001401 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 649349001402 Walker A motif; other site 649349001403 ATP binding site [chemical binding]; other site 649349001404 Walker B motif; other site 649349001405 arginine finger; other site 649349001406 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 649349001407 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 649349001408 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 649349001409 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 649349001410 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 649349001411 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 649349001412 Surface antigen; Region: Bac_surface_Ag; pfam01103 649349001413 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 649349001414 dimer interface [polypeptide binding]; other site 649349001415 ligand binding site [chemical binding]; other site 649349001416 Protein of unknown function (DUF998); Region: DUF998; pfam06197 649349001417 Methyltransferase domain; Region: Methyltransf_24; pfam13578 649349001418 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 649349001419 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 649349001420 ligand binding site [chemical binding]; other site 649349001421 active site 649349001422 UGI interface [polypeptide binding]; other site 649349001423 catalytic site [active] 649349001424 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 649349001425 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 649349001426 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 649349001427 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 649349001428 AsnC family; Region: AsnC_trans_reg; pfam01037 649349001429 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 649349001430 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 649349001431 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 649349001432 active site 649349001433 PHP Thumb interface [polypeptide binding]; other site 649349001434 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 649349001435 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 649349001436 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 649349001437 active site 649349001438 DNA binding site [nucleotide binding] 649349001439 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 649349001440 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 649349001441 non-specific DNA binding site [nucleotide binding]; other site 649349001442 salt bridge; other site 649349001443 sequence-specific DNA binding site [nucleotide binding]; other site 649349001444 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 649349001445 Catalytic site [active] 649349001446 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349001447 Major Facilitator Superfamily; Region: MFS_1; pfam07690 649349001448 putative substrate translocation pore; other site 649349001449 maltose phosphorylase; Provisional; Region: PRK13807 649349001450 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 649349001451 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 649349001452 Pectinesterase; Region: Pectinesterase; pfam01095 649349001453 putative pectinesterase; Region: PLN02432; cl01911 649349001454 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 649349001455 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 649349001456 active site 649349001457 beta-phosphoglucomutase; Region: bPGM; TIGR01990 649349001458 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 649349001459 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 649349001460 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 649349001461 active site 649349001462 catalytic site [active] 649349001463 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 649349001464 oxyanion hole [active] 649349001465 aminoacyl-tRNA ligase; Region: PLN02563 649349001466 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 649349001467 active site 649349001468 HIGH motif; other site 649349001469 nucleotide binding site [chemical binding]; other site 649349001470 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 649349001471 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 649349001472 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 649349001473 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 649349001474 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 649349001475 active site 649349001476 KMSKS motif; other site 649349001477 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 649349001478 tRNA binding surface [nucleotide binding]; other site 649349001479 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 649349001480 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349001481 catalytic residues [active] 649349001482 Predicted membrane protein [Function unknown]; Region: COG2259 649349001483 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 649349001484 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 649349001485 active site 649349001486 substrate binding site [chemical binding]; other site 649349001487 cosubstrate binding site; other site 649349001488 catalytic site [active] 649349001489 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 649349001490 UbiA prenyltransferase family; Region: UbiA; pfam01040 649349001491 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 649349001492 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 649349001493 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 649349001494 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 649349001495 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349001496 Walker A/P-loop; other site 649349001497 ATP binding site [chemical binding]; other site 649349001498 Q-loop/lid; other site 649349001499 ABC transporter signature motif; other site 649349001500 Walker B; other site 649349001501 D-loop; other site 649349001502 H-loop/switch region; other site 649349001503 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 649349001504 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 649349001505 active site 649349001506 YceG-like family; Region: YceG; pfam02618 649349001507 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 649349001508 dimerization interface [polypeptide binding]; other site 649349001509 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 649349001510 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 649349001511 dimer interface [polypeptide binding]; other site 649349001512 motif 1; other site 649349001513 active site 649349001514 motif 2; other site 649349001515 motif 3; other site 649349001516 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 649349001517 anticodon binding site; other site 649349001518 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 649349001519 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 649349001520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349001521 homodimer interface [polypeptide binding]; other site 649349001522 catalytic residue [active] 649349001523 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 649349001524 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 649349001525 active site 649349001526 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 649349001527 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349001528 cell surface protein SprA; Region: surface_SprA; TIGR04189 649349001529 Motility related/secretion protein; Region: SprA_N; pfam14349 649349001530 Motility related/secretion protein; Region: SprA_N; pfam14349 649349001531 Motility related/secretion protein; Region: SprA_N; pfam14349 649349001532 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 649349001533 RuvA N terminal domain; Region: RuvA_N; pfam01330 649349001534 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 649349001535 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 649349001536 active site residue [active] 649349001537 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 649349001538 catalytic residues [active] 649349001539 enolase; Provisional; Region: eno; PRK00077 649349001540 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 649349001541 dimer interface [polypeptide binding]; other site 649349001542 metal binding site [ion binding]; metal-binding site 649349001543 substrate binding pocket [chemical binding]; other site 649349001544 Septum formation initiator; Region: DivIC; cl17659 649349001545 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 649349001546 Low molecular weight phosphatase family; Region: LMWPc; cd00115 649349001547 active site 649349001548 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 649349001549 MarR family; Region: MarR_2; pfam12802 649349001550 MarR family; Region: MarR_2; cl17246 649349001551 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 649349001552 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 649349001553 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 649349001554 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 649349001555 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 649349001556 Walker A/P-loop; other site 649349001557 ATP binding site [chemical binding]; other site 649349001558 Q-loop/lid; other site 649349001559 ABC transporter signature motif; other site 649349001560 Walker B; other site 649349001561 D-loop; other site 649349001562 H-loop/switch region; other site 649349001563 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 649349001564 putative active site [active] 649349001565 Zn binding site [ion binding]; other site 649349001566 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 649349001567 conserved cys residue [active] 649349001568 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 649349001569 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 649349001570 active site 649349001571 catalytic tetrad [active] 649349001572 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 649349001573 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 649349001574 Catalytic site [active] 649349001575 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 649349001576 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 649349001577 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 649349001578 Ligand binding site; other site 649349001579 Putative Catalytic site; other site 649349001580 DXD motif; other site 649349001581 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 649349001582 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 649349001583 inhibitor-cofactor binding pocket; inhibition site 649349001584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349001585 catalytic residue [active] 649349001586 WxcM-like, C-terminal; Region: FdtA; pfam05523 649349001587 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 649349001588 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 649349001589 dimer interface [polypeptide binding]; other site 649349001590 active site 649349001591 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 649349001592 catalytic residues [active] 649349001593 substrate binding site [chemical binding]; other site 649349001594 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 649349001595 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 649349001596 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 649349001597 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 649349001598 putative active site [active] 649349001599 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 649349001600 homoserine kinase; Provisional; Region: PRK01212 649349001601 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 649349001602 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 649349001603 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 649349001604 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 649349001605 putative catalytic residues [active] 649349001606 nucleotide binding site [chemical binding]; other site 649349001607 aspartate binding site [chemical binding]; other site 649349001608 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 649349001609 dimer interface [polypeptide binding]; other site 649349001610 putative threonine allosteric regulatory site; other site 649349001611 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 649349001612 putative threonine allosteric regulatory site; other site 649349001613 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 649349001614 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 649349001615 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 649349001616 dimerization interface [polypeptide binding]; other site 649349001617 putative DNA binding site [nucleotide binding]; other site 649349001618 putative Zn2+ binding site [ion binding]; other site 649349001619 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 649349001620 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 649349001621 catalytic residue [active] 649349001622 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 649349001623 YhhN-like protein; Region: YhhN; pfam07947 649349001624 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 649349001625 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349001626 Maf-like protein; Region: Maf; pfam02545 649349001627 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 649349001628 active site 649349001629 dimer interface [polypeptide binding]; other site 649349001630 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 649349001631 MarR family; Region: MarR; pfam01047 649349001632 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 649349001633 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 649349001634 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 649349001635 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 649349001636 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 649349001637 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 649349001638 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 649349001639 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 649349001640 active site 649349001641 metal binding site [ion binding]; metal-binding site 649349001642 homotetramer interface [polypeptide binding]; other site 649349001643 FlgD Tudor-like domain; Region: FLgD_tudor; cl17881 649349001644 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 649349001645 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 649349001646 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 649349001647 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 649349001648 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 649349001649 Substrate binding site; other site 649349001650 metal-binding site 649349001651 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 649349001652 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 649349001653 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 649349001654 active site 649349001655 Zn binding site [ion binding]; other site 649349001656 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 649349001657 active site 649349001658 Zn binding site [ion binding]; other site 649349001659 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 649349001660 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 649349001661 Clp amino terminal domain; Region: Clp_N; pfam02861 649349001662 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 649349001663 Walker A motif; other site 649349001664 ATP binding site [chemical binding]; other site 649349001665 Walker B motif; other site 649349001666 arginine finger; other site 649349001667 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 649349001668 Walker A motif; other site 649349001669 ATP binding site [chemical binding]; other site 649349001670 Walker B motif; other site 649349001671 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 649349001672 DinB superfamily; Region: DinB_2; pfam12867 649349001673 DinB family; Region: DinB; cl17821 649349001674 DinB superfamily; Region: DinB_2; pfam12867 649349001675 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 649349001676 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 649349001677 active site 649349001678 DNA polymerase I; Provisional; Region: PRK05755 649349001679 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 649349001680 active site 649349001681 metal binding site 1 [ion binding]; metal-binding site 649349001682 putative 5' ssDNA interaction site; other site 649349001683 metal binding site 3; metal-binding site 649349001684 metal binding site 2 [ion binding]; metal-binding site 649349001685 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 649349001686 putative DNA binding site [nucleotide binding]; other site 649349001687 putative metal binding site [ion binding]; other site 649349001688 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 649349001689 active site 649349001690 catalytic site [active] 649349001691 substrate binding site [chemical binding]; other site 649349001692 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 649349001693 active site 649349001694 DNA binding site [nucleotide binding] 649349001695 catalytic site [active] 649349001696 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 649349001697 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 649349001698 active site 649349001699 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 649349001700 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 649349001701 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 649349001702 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 649349001703 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 649349001704 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 649349001705 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349001706 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 649349001707 AMP binding site [chemical binding]; other site 649349001708 metal binding site [ion binding]; metal-binding site 649349001709 active site 649349001710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 649349001711 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 649349001712 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 649349001713 dimer interface [polypeptide binding]; other site 649349001714 active site 649349001715 ADP-ribose binding site [chemical binding]; other site 649349001716 nudix motif; other site 649349001717 metal binding site [ion binding]; metal-binding site 649349001718 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 649349001719 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 649349001720 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 649349001721 homotrimer interaction site [polypeptide binding]; other site 649349001722 putative active site [active] 649349001723 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 649349001724 Malic enzyme, N-terminal domain; Region: malic; pfam00390 649349001725 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 649349001726 putative NAD(P) binding site [chemical binding]; other site 649349001727 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 649349001728 Arylesterase; Region: Arylesterase; pfam01731 649349001729 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 649349001730 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 649349001731 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 649349001732 ATP binding site [chemical binding]; other site 649349001733 Mg++ binding site [ion binding]; other site 649349001734 motif III; other site 649349001735 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 649349001736 nucleotide binding region [chemical binding]; other site 649349001737 ATP-binding site [chemical binding]; other site 649349001738 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 649349001739 RNA binding site [nucleotide binding]; other site 649349001740 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 649349001741 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 649349001742 putative active site [active] 649349001743 catalytic site [active] 649349001744 putative metal binding site [ion binding]; other site 649349001745 oligomer interface [polypeptide binding]; other site 649349001746 elongation factor Tu; Reviewed; Region: PRK00049 649349001747 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 649349001748 Interdomain contacts; other site 649349001749 Cytokine receptor motif; other site 649349001750 TANFOR domain; Region: T_forsyth_147; TIGR02542 649349001751 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 649349001752 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 649349001753 Interdomain contacts; other site 649349001754 Cytokine receptor motif; other site 649349001755 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 649349001756 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 649349001757 Histidine kinase; Region: HisKA_3; pfam07730 649349001758 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349001759 ATP binding site [chemical binding]; other site 649349001760 Mg2+ binding site [ion binding]; other site 649349001761 G-X-G motif; other site 649349001762 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 649349001763 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349001764 active site 649349001765 phosphorylation site [posttranslational modification] 649349001766 intermolecular recognition site; other site 649349001767 dimerization interface [polypeptide binding]; other site 649349001768 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 649349001769 DNA binding residues [nucleotide binding] 649349001770 dimerization interface [polypeptide binding]; other site 649349001771 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 649349001772 GTP cyclohydrolase I; Provisional; Region: PLN03044 649349001773 active site 649349001774 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 649349001775 active site 649349001776 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14970 649349001777 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 649349001778 Walker A motif; other site 649349001779 ATP binding site [chemical binding]; other site 649349001780 Walker B motif; other site 649349001781 arginine finger; other site 649349001782 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349001783 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349001784 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349001785 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 649349001786 ligand binding site [chemical binding]; other site 649349001787 flexible hinge region; other site 649349001788 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 649349001789 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349001790 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 649349001791 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 649349001792 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 649349001793 putative active site [active] 649349001794 putative CoA binding site [chemical binding]; other site 649349001795 nudix motif; other site 649349001796 metal binding site [ion binding]; metal-binding site 649349001797 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 649349001798 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 649349001799 4Fe-4S binding domain; Region: Fer4; pfam00037 649349001800 4Fe-4S binding domain; Region: Fer4; pfam00037 649349001801 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 649349001802 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 649349001803 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 649349001804 GIY-YIG motif/motif A; other site 649349001805 putative active site [active] 649349001806 putative metal binding site [ion binding]; other site 649349001807 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 649349001808 dimer interface [polypeptide binding]; other site 649349001809 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349001810 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 649349001811 ligand binding site [chemical binding]; other site 649349001812 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 649349001813 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 649349001814 pyridoxamine kinase; Validated; Region: PRK05756 649349001815 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 649349001816 dimer interface [polypeptide binding]; other site 649349001817 pyridoxal binding site [chemical binding]; other site 649349001818 ATP binding site [chemical binding]; other site 649349001819 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 649349001820 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 649349001821 catalytic residue [active] 649349001822 Predicted membrane protein [Function unknown]; Region: COG1289 649349001823 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 649349001824 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 649349001825 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349001826 Coenzyme A binding pocket [chemical binding]; other site 649349001827 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 649349001828 active site triad [active] 649349001829 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 649349001830 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 649349001831 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 649349001832 RES domain; Region: RES; pfam08808 649349001833 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 649349001834 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 649349001835 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 649349001836 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 649349001837 ATP binding site [chemical binding]; other site 649349001838 putative Mg++ binding site [ion binding]; other site 649349001839 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 649349001840 nucleotide binding region [chemical binding]; other site 649349001841 ATP-binding site [chemical binding]; other site 649349001842 DEAD/H associated; Region: DEAD_assoc; pfam08494 649349001843 metallophosphoesterase, DNA ligase-associated; Region: P_estr_lig_assc; TIGR04123 649349001844 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 649349001845 active site 649349001846 metal binding site [ion binding]; metal-binding site 649349001847 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349001848 Coenzyme A binding pocket [chemical binding]; other site 649349001849 Predicted amidohydrolase [General function prediction only]; Region: COG0388 649349001850 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 649349001851 putative active site [active] 649349001852 catalytic triad [active] 649349001853 putative dimer interface [polypeptide binding]; other site 649349001854 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 649349001855 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349001856 Coenzyme A binding pocket [chemical binding]; other site 649349001857 Predicted permeases [General function prediction only]; Region: COG0679 649349001858 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 649349001859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349001860 dimer interface [polypeptide binding]; other site 649349001861 phosphorylation site [posttranslational modification] 649349001862 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349001863 ATP binding site [chemical binding]; other site 649349001864 Mg2+ binding site [ion binding]; other site 649349001865 G-X-G motif; other site 649349001866 Response regulator receiver domain; Region: Response_reg; pfam00072 649349001867 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349001868 active site 649349001869 phosphorylation site [posttranslational modification] 649349001870 intermolecular recognition site; other site 649349001871 dimerization interface [polypeptide binding]; other site 649349001872 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 649349001873 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 649349001874 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 649349001875 nucleotide binding site [chemical binding]; other site 649349001876 NEF interaction site [polypeptide binding]; other site 649349001877 SBD interface [polypeptide binding]; other site 649349001878 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 649349001879 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 649349001880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349001881 homodimer interface [polypeptide binding]; other site 649349001882 catalytic residue [active] 649349001883 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 649349001884 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 649349001885 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 649349001886 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 649349001887 active site 649349001888 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 649349001889 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 649349001890 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 649349001891 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 649349001892 putative transposase OrfB; Reviewed; Region: PHA02517 649349001893 HTH-like domain; Region: HTH_21; pfam13276 649349001894 Integrase core domain; Region: rve; pfam00665 649349001895 Integrase core domain; Region: rve_3; cl15866 649349001896 Transposase; Region: HTH_Tnp_1; cl17663 649349001897 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349001898 Homeodomain-like domain; Region: HTH_23; cl17451 649349001899 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 649349001900 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 649349001901 NADP binding site [chemical binding]; other site 649349001902 active site 649349001903 putative substrate binding site [chemical binding]; other site 649349001904 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 649349001905 active site 649349001906 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 649349001907 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; cl17708 649349001908 domain interfaces; other site 649349001909 active site 649349001910 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 649349001911 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 649349001912 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 649349001913 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 649349001914 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 649349001915 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 649349001916 CcmB protein; Region: CcmB; cl17444 649349001917 Peptidase family S41; Region: Peptidase_S41; pfam03572 649349001918 Active site serine [active] 649349001919 transcription antitermination factor NusB; Region: nusB; TIGR01951 649349001920 YtxH-like protein; Region: YtxH; pfam12732 649349001921 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 649349001922 Preprotein translocase subunit; Region: YajC; pfam02699 649349001923 Protein of unknown function (DUF721); Region: DUF721; pfam05258 649349001924 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 649349001925 dimer interface [polypeptide binding]; other site 649349001926 catalytic triad [active] 649349001927 glycyl-tRNA synthetase; Provisional; Region: PRK04173 649349001928 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 649349001929 motif 1; other site 649349001930 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 649349001931 active site 649349001932 motif 2; other site 649349001933 motif 3; other site 649349001934 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 649349001935 anticodon binding site; other site 649349001936 Bacterial SH3 domain; Region: SH3_3; cl17532 649349001937 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 649349001938 TRAM domain; Region: TRAM; cl01282 649349001939 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 649349001940 S-adenosylmethionine binding site [chemical binding]; other site 649349001941 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 649349001942 Active site serine [active] 649349001943 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 649349001944 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 649349001945 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 649349001946 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 649349001947 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 649349001948 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 649349001949 Chorismate mutase type II; Region: CM_2; smart00830 649349001950 proline dehydrogenase; Region: PLN02681 649349001951 lipoprotein signal peptidase; Provisional; Region: PRK14787 649349001952 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 649349001953 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 649349001954 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 649349001955 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 649349001956 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 649349001957 FAD binding pocket [chemical binding]; other site 649349001958 FAD binding motif [chemical binding]; other site 649349001959 phosphate binding motif [ion binding]; other site 649349001960 beta-alpha-beta structure motif; other site 649349001961 NAD(p) ribose binding residues [chemical binding]; other site 649349001962 NAD binding pocket [chemical binding]; other site 649349001963 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 649349001964 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 649349001965 catalytic loop [active] 649349001966 iron binding site [ion binding]; other site 649349001967 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 649349001968 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 649349001969 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 649349001970 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349001971 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 649349001972 ligand binding site [chemical binding]; other site 649349001973 flexible hinge region; other site 649349001974 Transposase; Region: HTH_Tnp_1; pfam01527 649349001975 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 649349001976 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 649349001977 active site 649349001978 Predicted transcriptional regulators [Transcription]; Region: COG1733 649349001979 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 649349001980 dimerization interface [polypeptide binding]; other site 649349001981 putative DNA binding site [nucleotide binding]; other site 649349001982 putative Zn2+ binding site [ion binding]; other site 649349001983 DoxX-like family; Region: DoxX_2; pfam13564 649349001984 Pirin-related protein [General function prediction only]; Region: COG1741 649349001985 Pirin; Region: Pirin; pfam02678 649349001986 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 649349001987 Predicted acetyltransferase [General function prediction only]; Region: COG2388 649349001988 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 649349001989 AAA domain; Region: AAA_14; pfam13173 649349001990 Helix-turn-helix domain; Region: HTH_18; pfam12833 649349001991 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349001992 short chain dehydrogenase; Provisional; Region: PRK12744 649349001993 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 649349001994 NADP binding site [chemical binding]; other site 649349001995 homodimer interface [polypeptide binding]; other site 649349001996 active site 649349001997 substrate binding site [chemical binding]; other site 649349001998 SnoaL-like domain; Region: SnoaL_2; pfam12680 649349001999 Helix-turn-helix domain; Region: HTH_18; pfam12833 649349002000 RibD C-terminal domain; Region: RibD_C; cl17279 649349002001 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 649349002002 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 649349002003 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 649349002004 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 649349002005 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 649349002006 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349002007 Walker A/P-loop; other site 649349002008 ATP binding site [chemical binding]; other site 649349002009 Q-loop/lid; other site 649349002010 ABC transporter signature motif; other site 649349002011 Walker B; other site 649349002012 D-loop; other site 649349002013 H-loop/switch region; other site 649349002014 Erythromycin esterase; Region: Erythro_esteras; cl17110 649349002015 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 649349002016 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 649349002017 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 649349002018 metal binding site 2 [ion binding]; metal-binding site 649349002019 putative DNA binding helix; other site 649349002020 metal binding site 1 [ion binding]; metal-binding site 649349002021 dimer interface [polypeptide binding]; other site 649349002022 structural Zn2+ binding site [ion binding]; other site 649349002023 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 649349002024 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 649349002025 active site 649349002026 catalytic residues [active] 649349002027 metal binding site [ion binding]; metal-binding site 649349002028 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 649349002029 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349002030 ligand binding site [chemical binding]; other site 649349002031 flexible hinge region; other site 649349002032 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 649349002033 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 649349002034 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 649349002035 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349002036 Walker A/P-loop; other site 649349002037 ATP binding site [chemical binding]; other site 649349002038 Q-loop/lid; other site 649349002039 ABC transporter signature motif; other site 649349002040 Walker B; other site 649349002041 D-loop; other site 649349002042 H-loop/switch region; other site 649349002043 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 649349002044 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 649349002045 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349002046 catalytic residues [active] 649349002047 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 649349002048 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 649349002049 Uncharacterized conserved protein [Function unknown]; Region: COG2128 649349002050 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349002051 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 649349002052 ligand binding site [chemical binding]; other site 649349002053 flexible hinge region; other site 649349002054 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 649349002055 active site 649349002056 NTP binding site [chemical binding]; other site 649349002057 metal binding triad [ion binding]; metal-binding site 649349002058 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 649349002059 Lactoylglutathione lyase and related lyases [Amino acid transport and metabolism]; Region: GloA; COG0346 649349002060 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 649349002061 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 649349002062 catalytic core [active] 649349002063 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 649349002064 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 649349002065 active site 649349002066 catalytic tetrad [active] 649349002067 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349002068 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 649349002069 ligand binding site [chemical binding]; other site 649349002070 Recombinase; Region: Recombinase; pfam07508 649349002071 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 649349002072 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 649349002073 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 649349002074 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 649349002075 Peptidase family M28; Region: Peptidase_M28; pfam04389 649349002076 metal binding site [ion binding]; metal-binding site 649349002077 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 649349002078 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349002079 Coenzyme A binding pocket [chemical binding]; other site 649349002080 Pirin-related protein [General function prediction only]; Region: COG1741 649349002081 Pirin; Region: Pirin; pfam02678 649349002082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349002083 Response regulator receiver domain; Region: Response_reg; pfam00072 649349002084 active site 649349002085 phosphorylation site [posttranslational modification] 649349002086 intermolecular recognition site; other site 649349002087 dimerization interface [polypeptide binding]; other site 649349002088 LytTr DNA-binding domain; Region: LytTR; smart00850 649349002089 Histidine kinase; Region: His_kinase; pfam06580 649349002090 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 649349002091 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 649349002092 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349002093 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349002094 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349002095 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349002096 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349002097 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 649349002098 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 649349002099 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 649349002100 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349002101 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 649349002102 dimer interface [polypeptide binding]; other site 649349002103 phosphorylation site [posttranslational modification] 649349002104 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349002105 ATP binding site [chemical binding]; other site 649349002106 Mg2+ binding site [ion binding]; other site 649349002107 G-X-G motif; other site 649349002108 Response regulator receiver domain; Region: Response_reg; pfam00072 649349002109 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349002110 active site 649349002111 phosphorylation site [posttranslational modification] 649349002112 intermolecular recognition site; other site 649349002113 dimerization interface [polypeptide binding]; other site 649349002114 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349002115 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349002116 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 649349002117 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 649349002118 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 649349002119 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 649349002120 oligomer interface [polypeptide binding]; other site 649349002121 active site 649349002122 metal binding site [ion binding]; metal-binding site 649349002123 methionine sulfoxide reductase B; Provisional; Region: PRK00222 649349002124 SelR domain; Region: SelR; pfam01641 649349002125 FeS assembly ATPase SufC; Region: sufC; TIGR01978 649349002126 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 649349002127 Walker A/P-loop; other site 649349002128 ATP binding site [chemical binding]; other site 649349002129 Q-loop/lid; other site 649349002130 ABC transporter signature motif; other site 649349002131 Walker B; other site 649349002132 D-loop; other site 649349002133 H-loop/switch region; other site 649349002134 FeS assembly protein SufD; Region: sufD; TIGR01981 649349002135 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 649349002136 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 649349002137 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 649349002138 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 649349002139 catalytic residue [active] 649349002140 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 649349002141 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 649349002142 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 649349002143 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 649349002144 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 649349002145 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 649349002146 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 649349002147 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 649349002148 FeS/SAM binding site; other site 649349002149 HemN C-terminal domain; Region: HemN_C; pfam06969 649349002150 Methyltransferase domain; Region: Methyltransf_23; pfam13489 649349002151 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 649349002152 S-adenosylmethionine binding site [chemical binding]; other site 649349002153 Chemokine: small cytokines, including a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; distinguished from other cytokines by their receptors, which are G-protein coupled receptors; divided...; Region: Chemokine; cl00134 649349002154 putative glycosaminoglycan (GAG) binding site [chemical binding]; other site 649349002155 30s-loop; other site 649349002156 40s-loop; other site 649349002157 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349002158 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 649349002159 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349002160 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 649349002161 Protein export membrane protein; Region: SecD_SecF; cl14618 649349002162 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 649349002163 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 649349002164 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 649349002165 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 649349002166 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 649349002167 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 649349002168 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 649349002169 substrate binding pocket [chemical binding]; other site 649349002170 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 649349002171 B12 binding site [chemical binding]; other site 649349002172 cobalt ligand [ion binding]; other site 649349002173 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 649349002174 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 649349002175 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 649349002176 dimerization interface [polypeptide binding]; other site 649349002177 putative DNA binding site [nucleotide binding]; other site 649349002178 putative Zn2+ binding site [ion binding]; other site 649349002179 AsnC family; Region: AsnC_trans_reg; pfam01037 649349002180 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349002181 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349002182 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349002183 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 649349002184 metal-binding site [ion binding] 649349002185 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 649349002186 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 649349002187 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349002188 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 649349002189 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349002190 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 649349002191 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 649349002192 putative hydrophobic ligand binding site [chemical binding]; other site 649349002193 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349002194 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 649349002195 ligand binding site [chemical binding]; other site 649349002196 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 649349002197 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 649349002198 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 649349002199 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 649349002200 catalytic residues [active] 649349002201 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 649349002202 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 649349002203 non-specific DNA binding site [nucleotide binding]; other site 649349002204 salt bridge; other site 649349002205 sequence-specific DNA binding site [nucleotide binding]; other site 649349002206 Domain of unknown function (DUF955); Region: DUF955; cl01076 649349002207 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 649349002208 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 649349002209 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 649349002210 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 649349002211 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 649349002212 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 649349002213 Leucine-rich repeats; other site 649349002214 Substrate binding site [chemical binding]; other site 649349002215 Leucine rich repeat; Region: LRR_8; pfam13855 649349002216 Leucine rich repeat; Region: LRR_8; pfam13855 649349002217 thymidylate synthase; Reviewed; Region: thyA; PRK01827 649349002218 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 649349002219 dimerization interface [polypeptide binding]; other site 649349002220 active site 649349002221 BNR repeat-like domain; Region: BNR_2; pfam13088 649349002222 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 649349002223 Asp-box motif; other site 649349002224 Sulfatase; Region: Sulfatase; cl17466 649349002225 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 649349002226 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 649349002227 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 649349002228 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 649349002229 RNA methyltransferase, RsmE family; Region: TIGR00046 649349002230 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 649349002231 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 649349002232 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 649349002233 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 649349002234 RimM N-terminal domain; Region: RimM; pfam01782 649349002235 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 649349002236 DNA gyrase subunit A; Validated; Region: PRK05560 649349002237 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 649349002238 CAP-like domain; other site 649349002239 active site 649349002240 primary dimer interface [polypeptide binding]; other site 649349002241 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 649349002242 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 649349002243 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 649349002244 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 649349002245 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 649349002246 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 649349002247 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 649349002248 binding surface 649349002249 TPR motif; other site 649349002250 TPR repeat; Region: TPR_11; pfam13414 649349002251 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 649349002252 binding surface 649349002253 TPR motif; other site 649349002254 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 649349002255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349002256 NAD(P) binding site [chemical binding]; other site 649349002257 active site 649349002258 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349002259 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 649349002260 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 649349002261 N-terminal plug; other site 649349002262 ligand-binding site [chemical binding]; other site 649349002263 Two component regulator propeller; Region: Reg_prop; pfam07494 649349002264 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 649349002265 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 649349002266 dimerization interface [polypeptide binding]; other site 649349002267 putative DNA binding site [nucleotide binding]; other site 649349002268 putative Zn2+ binding site [ion binding]; other site 649349002269 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 649349002270 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349002271 Coenzyme A binding pocket [chemical binding]; other site 649349002272 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349002273 Coenzyme A binding pocket [chemical binding]; other site 649349002274 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 649349002275 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 649349002276 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 649349002277 trimer interface [polypeptide binding]; other site 649349002278 active site 649349002279 substrate binding site [chemical binding]; other site 649349002280 CoA binding site [chemical binding]; other site 649349002281 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 649349002282 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 649349002283 non-specific DNA binding site [nucleotide binding]; other site 649349002284 salt bridge; other site 649349002285 sequence-specific DNA binding site [nucleotide binding]; other site 649349002286 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 649349002287 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 649349002288 trimer interface [polypeptide binding]; other site 649349002289 active site 649349002290 substrate binding site [chemical binding]; other site 649349002291 CoA binding site [chemical binding]; other site 649349002292 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 649349002293 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 649349002294 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 649349002295 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 649349002296 S-adenosylmethionine binding site [chemical binding]; other site 649349002297 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 649349002298 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 649349002299 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 649349002300 Sporulation related domain; Region: SPOR; pfam05036 649349002301 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 649349002302 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 649349002303 binding surface 649349002304 TPR motif; other site 649349002305 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 649349002306 binding surface 649349002307 TPR motif; other site 649349002308 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 649349002309 binding surface 649349002310 TPR motif; other site 649349002311 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 649349002312 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 649349002313 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 649349002314 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 649349002315 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 649349002316 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 649349002317 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349002318 catalytic residues [active] 649349002319 dihydrodipicolinate reductase; Provisional; Region: PRK00048 649349002320 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 649349002321 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 649349002322 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 649349002323 ParB-like nuclease domain; Region: ParB; smart00470 649349002324 AAA domain; Region: AAA_31; pfam13614 649349002325 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 649349002326 P-loop; other site 649349002327 Magnesium ion binding site [ion binding]; other site 649349002328 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 649349002329 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 649349002330 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 649349002331 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349002332 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 649349002333 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 649349002334 DNA binding residues [nucleotide binding] 649349002335 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 649349002336 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 649349002337 RNase E interface [polypeptide binding]; other site 649349002338 trimer interface [polypeptide binding]; other site 649349002339 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 649349002340 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 649349002341 RNase E interface [polypeptide binding]; other site 649349002342 trimer interface [polypeptide binding]; other site 649349002343 active site 649349002344 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 649349002345 putative nucleic acid binding region [nucleotide binding]; other site 649349002346 G-X-X-G motif; other site 649349002347 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 649349002348 RNA binding site [nucleotide binding]; other site 649349002349 domain interface; other site 649349002350 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 649349002351 16S/18S rRNA binding site [nucleotide binding]; other site 649349002352 S13e-L30e interaction site [polypeptide binding]; other site 649349002353 25S rRNA binding site [nucleotide binding]; other site 649349002354 Predicted permeases [General function prediction only]; Region: COG0795 649349002355 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 649349002356 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 649349002357 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 649349002358 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 649349002359 hydrophobic ligand binding site; other site 649349002360 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349002361 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 649349002362 ligand binding site [chemical binding]; other site 649349002363 flexible hinge region; other site 649349002364 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 649349002365 non-specific DNA interactions [nucleotide binding]; other site 649349002366 DNA binding site [nucleotide binding] 649349002367 sequence specific DNA binding site [nucleotide binding]; other site 649349002368 putative cAMP binding site [chemical binding]; other site 649349002369 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 649349002370 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 649349002371 Putative transposase; Region: Y2_Tnp; pfam04986 649349002372 Pirin-related protein [General function prediction only]; Region: COG1741 649349002373 Pirin; Region: Pirin; pfam02678 649349002374 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 649349002375 ligand binding site [chemical binding]; other site 649349002376 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 649349002377 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 649349002378 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 649349002379 Predicted transcriptional regulator [Transcription]; Region: COG3655 649349002380 salt bridge; other site 649349002381 non-specific DNA binding site [nucleotide binding]; other site 649349002382 sequence-specific DNA binding site [nucleotide binding]; other site 649349002383 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349002384 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 649349002385 ligand binding site [chemical binding]; other site 649349002386 SnoaL-like domain; Region: SnoaL_2; pfam12680 649349002387 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 649349002388 active site 649349002389 LytTr DNA-binding domain; Region: LytTR; smart00850 649349002390 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 649349002391 Predicted transporter component [General function prediction only]; Region: COG2391 649349002392 Sulphur transport; Region: Sulf_transp; pfam04143 649349002393 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 649349002394 four helix bundle protein; Region: TIGR02436 649349002395 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 649349002396 Predicted transporter component [General function prediction only]; Region: COG2391 649349002397 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 649349002398 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349002399 catalytic residues [active] 649349002400 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 649349002401 active site residue [active] 649349002402 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 649349002403 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 649349002404 active site residue [active] 649349002405 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 649349002406 active site residue [active] 649349002407 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 649349002408 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 649349002409 four helix bundle protein; Region: TIGR02436 649349002410 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 649349002411 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 649349002412 starch-binding site 2 [chemical binding]; other site 649349002413 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 649349002414 Putative transposase; Region: Y2_Tnp; pfam04986 649349002415 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349002416 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 649349002417 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349002418 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 649349002419 ligand binding site [chemical binding]; other site 649349002420 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 649349002421 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 649349002422 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349002423 Transposase; Region: HTH_Tnp_1; cl17663 649349002424 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 649349002425 active site 649349002426 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349002427 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 649349002428 Transposase; Region: DDE_Tnp_ISL3; pfam01610 649349002429 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 649349002430 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 649349002431 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 649349002432 dimerization interface [polypeptide binding]; other site 649349002433 ATP binding site [chemical binding]; other site 649349002434 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 649349002435 dimerization interface [polypeptide binding]; other site 649349002436 ATP binding site [chemical binding]; other site 649349002437 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 649349002438 probable DNA repair protein; Region: TIGR03623 649349002439 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 649349002440 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 649349002441 ATP-grasp domain; Region: ATP-grasp; pfam02222 649349002442 AIR carboxylase; Region: AIRC; pfam00731 649349002443 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349002444 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349002445 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349002446 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349002447 putative active site [active] 649349002448 putative NTP binding site [chemical binding]; other site 649349002449 putative nucleic acid binding site [nucleotide binding]; other site 649349002450 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349002451 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 649349002452 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 649349002453 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 649349002454 NAD(P) binding site [chemical binding]; other site 649349002455 homotetramer interface [polypeptide binding]; other site 649349002456 homodimer interface [polypeptide binding]; other site 649349002457 active site 649349002458 Predicted methyltransferases [General function prediction only]; Region: COG0313 649349002459 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 649349002460 putative SAM binding site [chemical binding]; other site 649349002461 putative homodimer interface [polypeptide binding]; other site 649349002462 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 649349002463 metal-dependent hydrolase; Provisional; Region: PRK13291 649349002464 DinB superfamily; Region: DinB_2; pfam12867 649349002465 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 649349002466 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 649349002467 active site 649349002468 dimerization interface [polypeptide binding]; other site 649349002469 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 649349002470 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 649349002471 Clp amino terminal domain; Region: Clp_N; pfam02861 649349002472 Clp amino terminal domain; Region: Clp_N; pfam02861 649349002473 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 649349002474 Walker A motif; other site 649349002475 ATP binding site [chemical binding]; other site 649349002476 Walker B motif; other site 649349002477 arginine finger; other site 649349002478 UvrB/uvrC motif; Region: UVR; pfam02151 649349002479 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 649349002480 Walker A motif; other site 649349002481 ATP binding site [chemical binding]; other site 649349002482 Walker B motif; other site 649349002483 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 649349002484 WbqC-like protein family; Region: WbqC; pfam08889 649349002485 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 649349002486 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349002487 ligand binding site [chemical binding]; other site 649349002488 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 649349002489 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 649349002490 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 649349002491 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 649349002492 dimerization interface 3.5A [polypeptide binding]; other site 649349002493 active site 649349002494 nucleoside transporter; Region: 2A0110; TIGR00889 649349002495 fumarate hydratase; Reviewed; Region: fumC; PRK00485 649349002496 Class II fumarases; Region: Fumarase_classII; cd01362 649349002497 active site 649349002498 tetramer interface [polypeptide binding]; other site 649349002499 PQQ-like domain; Region: PQQ_2; pfam13360 649349002500 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 649349002501 nudix motif; other site 649349002502 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 649349002503 DNA polymerase III, delta subunit; Region: holA; TIGR01128 649349002504 Protein of unknown function, DUF479; Region: DUF479; cl01203 649349002505 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 649349002506 catalytic motif [active] 649349002507 Zn binding site [ion binding]; other site 649349002508 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 649349002509 active site 649349002510 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 649349002511 PhoH-like protein; Region: PhoH; pfam02562 649349002512 replicative DNA helicase; Region: DnaB; TIGR00665 649349002513 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 649349002514 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 649349002515 Walker A motif; other site 649349002516 ATP binding site [chemical binding]; other site 649349002517 Walker B motif; other site 649349002518 DNA binding loops [nucleotide binding] 649349002519 putative oxidoreductase; Provisional; Region: PRK11579 649349002520 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349002521 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 649349002522 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 649349002523 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 649349002524 active site 649349002525 diaminopimelate decarboxylase; Region: lysA; TIGR01048 649349002526 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 649349002527 active site 649349002528 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 649349002529 substrate binding site [chemical binding]; other site 649349002530 catalytic residues [active] 649349002531 dimer interface [polypeptide binding]; other site 649349002532 Amidinotransferase; Region: Amidinotransf; cl12043 649349002533 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 649349002534 Amidinotransferase; Region: Amidinotransf; pfam02274 649349002535 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349002536 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 649349002537 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 649349002538 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 649349002539 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 649349002540 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 649349002541 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 649349002542 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 649349002543 Walker A motif; other site 649349002544 ATP binding site [chemical binding]; other site 649349002545 Walker B motif; other site 649349002546 arginine finger; other site 649349002547 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 649349002548 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 649349002549 AAA domain; Region: AAA_23; pfam13476 649349002550 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349002551 Walker A/P-loop; other site 649349002552 ATP binding site [chemical binding]; other site 649349002553 YcbB domain; Region: YcbB; pfam08664 649349002554 Uncharacterized conserved protein [Function unknown]; Region: COG4938 649349002555 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349002556 Walker A/P-loop; other site 649349002557 ATP binding site [chemical binding]; other site 649349002558 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 649349002559 Protein of unknown function DUF262; Region: DUF262; pfam03235 649349002560 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 649349002561 non-specific DNA binding site [nucleotide binding]; other site 649349002562 salt bridge; other site 649349002563 sequence-specific DNA binding site [nucleotide binding]; other site 649349002564 putative transposase OrfB; Reviewed; Region: PHA02517 649349002565 Integrase core domain; Region: rve; pfam00665 649349002566 Integrase core domain; Region: rve_3; pfam13683 649349002567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349002568 Transposase; Region: HTH_Tnp_1; cl17663 649349002569 VirE N-terminal domain; Region: VirE_N; pfam08800 649349002570 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 649349002571 Virulence-associated protein E; Region: VirE; pfam05272 649349002572 Helix-turn-helix domain; Region: HTH_17; pfam12728 649349002573 Cupin domain; Region: Cupin_2; pfam07883 649349002574 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 649349002575 DinB superfamily; Region: DinB_2; pfam12867 649349002576 Predicted ATPase [General function prediction only]; Region: COG3911 649349002577 AAA domain; Region: AAA_28; pfam13521 649349002578 SnoaL-like domain; Region: SnoaL_2; pfam12680 649349002579 DinB family; Region: DinB; cl17821 649349002580 DinB superfamily; Region: DinB_2; pfam12867 649349002581 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 649349002582 CoenzymeA binding site [chemical binding]; other site 649349002583 subunit interaction site [polypeptide binding]; other site 649349002584 PHB binding site; other site 649349002585 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 649349002586 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349002587 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 649349002588 Coenzyme A binding pocket [chemical binding]; other site 649349002589 metal-dependent hydrolase; Provisional; Region: PRK13291 649349002590 DinB superfamily; Region: DinB_2; pfam12867 649349002591 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 649349002592 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 649349002593 homodimer interface [polypeptide binding]; other site 649349002594 substrate-cofactor binding pocket; other site 649349002595 catalytic residue [active] 649349002596 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349002597 Coenzyme A binding pocket [chemical binding]; other site 649349002598 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 649349002599 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349002600 Coenzyme A binding pocket [chemical binding]; other site 649349002601 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 649349002602 EamA-like transporter family; Region: EamA; pfam00892 649349002603 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 649349002604 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 649349002605 DNA-binding site [nucleotide binding]; DNA binding site 649349002606 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 649349002607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349002608 homodimer interface [polypeptide binding]; other site 649349002609 catalytic residue [active] 649349002610 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 649349002611 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 649349002612 catalytic triad [active] 649349002613 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 649349002614 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 649349002615 catalytic residue [active] 649349002616 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 649349002617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349002618 Coenzyme A binding pocket [chemical binding]; other site 649349002619 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 649349002620 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 649349002621 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 649349002622 inhibitor site; inhibition site 649349002623 active site 649349002624 dimer interface [polypeptide binding]; other site 649349002625 catalytic residue [active] 649349002626 Cupin domain; Region: Cupin_2; pfam07883 649349002627 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 649349002628 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 649349002629 DNA-binding site [nucleotide binding]; DNA binding site 649349002630 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 649349002631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349002632 homodimer interface [polypeptide binding]; other site 649349002633 catalytic residue [active] 649349002634 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 649349002635 nucleoside/Zn binding site; other site 649349002636 dimer interface [polypeptide binding]; other site 649349002637 catalytic motif [active] 649349002638 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 649349002639 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 649349002640 active site 649349002641 DNA binding site [nucleotide binding] 649349002642 Int/Topo IB signature motif; other site 649349002643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 649349002644 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349002645 Transposase; Region: HTH_Tnp_1; cl17663 649349002646 putative transposase OrfB; Reviewed; Region: PHA02517 649349002647 HTH-like domain; Region: HTH_21; pfam13276 649349002648 Integrase core domain; Region: rve; pfam00665 649349002649 Integrase core domain; Region: rve_3; pfam13683 649349002650 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 649349002651 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 649349002652 dimer interface [polypeptide binding]; other site 649349002653 FMN binding site [chemical binding]; other site 649349002654 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 649349002655 dimer interface [polypeptide binding]; other site 649349002656 Outer membrane efflux protein; Region: OEP; pfam02321 649349002657 Outer membrane efflux protein; Region: OEP; pfam02321 649349002658 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 649349002659 Protein export membrane protein; Region: SecD_SecF; cl14618 649349002660 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349002661 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 649349002662 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349002663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 649349002664 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 649349002665 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 649349002666 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 649349002667 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 649349002668 CoA-ligase; Region: Ligase_CoA; pfam00549 649349002669 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 649349002670 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 649349002671 Walker A/P-loop; other site 649349002672 ATP binding site [chemical binding]; other site 649349002673 Q-loop/lid; other site 649349002674 ABC transporter signature motif; other site 649349002675 Walker B; other site 649349002676 D-loop; other site 649349002677 H-loop/switch region; other site 649349002678 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 649349002679 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 649349002680 dimerization interface [polypeptide binding]; other site 649349002681 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 649349002682 dimer interface [polypeptide binding]; other site 649349002683 phosphorylation site [posttranslational modification] 649349002684 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349002685 ATP binding site [chemical binding]; other site 649349002686 Mg2+ binding site [ion binding]; other site 649349002687 G-X-G motif; other site 649349002688 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 649349002689 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349002690 active site 649349002691 phosphorylation site [posttranslational modification] 649349002692 intermolecular recognition site; other site 649349002693 dimerization interface [polypeptide binding]; other site 649349002694 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 649349002695 DNA binding site [nucleotide binding] 649349002696 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 649349002697 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 649349002698 Na binding site [ion binding]; other site 649349002699 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 649349002700 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 649349002701 The ML (MD-2-related lipid-recognition) domain is present in MD-1, MD-2, GM2 activator protein, Niemann-Pick type C2 (Npc2) protein, phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP), mite allergen Der p 2 and several proteins of...; Region: ML; cl00274 649349002702 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349002703 DEAD-like helicases superfamily; Region: DEXDc; smart00487 649349002704 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 649349002705 ATP binding site [chemical binding]; other site 649349002706 putative Mg++ binding site [ion binding]; other site 649349002707 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 649349002708 nucleotide binding region [chemical binding]; other site 649349002709 ATP-binding site [chemical binding]; other site 649349002710 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed; Region: PRK04169 649349002711 PcrB family; Region: PcrB; pfam01884 649349002712 phosphate binding site [ion binding]; other site 649349002713 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 649349002714 catalytic center binding site [active] 649349002715 ATP binding site [chemical binding]; other site 649349002716 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 649349002717 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 649349002718 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 649349002719 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 649349002720 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 649349002721 active site 649349002722 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 649349002723 putative active site [active] 649349002724 catalytic residue [active] 649349002725 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 649349002726 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349002727 Coenzyme A binding pocket [chemical binding]; other site 649349002728 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 649349002729 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 649349002730 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 649349002731 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 649349002732 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 649349002733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 649349002734 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 649349002735 putative active site pocket [active] 649349002736 dimerization interface [polypeptide binding]; other site 649349002737 putative catalytic residue [active] 649349002738 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349002739 ligand binding site [chemical binding]; other site 649349002740 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 649349002741 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349002742 catalytic residues [active] 649349002743 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 649349002744 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 649349002745 inhibitor-cofactor binding pocket; inhibition site 649349002746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349002747 catalytic residue [active] 649349002748 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 649349002749 conserved cys residue [active] 649349002750 carboxylate-amine ligase; Provisional; Region: PRK13515 649349002751 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 649349002752 ATP-grasp domain; Region: ATP-grasp_4; cl17255 649349002753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 649349002754 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 649349002755 Putative esterase; Region: Esterase; pfam00756 649349002756 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 649349002757 4Fe-4S binding domain; Region: Fer4; pfam00037 649349002758 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 649349002759 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 649349002760 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349002761 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349002762 putative active site [active] 649349002763 putative NTP binding site [chemical binding]; other site 649349002764 putative nucleic acid binding site [nucleotide binding]; other site 649349002765 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349002766 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 649349002767 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 649349002768 glutamine synthetase; Region: PLN02284 649349002769 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 649349002770 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 649349002771 DNA polymerase IV (family X) [DNA replication, recombination, and repair]; Region: POL4; COG1796 649349002772 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 649349002773 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 649349002774 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 649349002775 active site 649349002776 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 649349002777 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 649349002778 Walker A motif; other site 649349002779 ATP binding site [chemical binding]; other site 649349002780 Walker B motif; other site 649349002781 arginine finger; other site 649349002782 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 649349002783 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 649349002784 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 649349002785 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 649349002786 FeS/SAM binding site; other site 649349002787 TRAM domain; Region: TRAM; pfam01938 649349002788 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349002789 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349002790 Trehalose utilisation; Region: ThuA; pfam06283 649349002791 Trehalose utilisation; Region: ThuA; pfam06283 649349002792 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 649349002793 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 649349002794 Cytochrome c; Region: Cytochrom_C; cl11414 649349002795 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 649349002796 ligand binding site [chemical binding]; other site 649349002797 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 649349002798 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 649349002799 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 649349002800 HEAT repeats; Region: HEAT_2; pfam13646 649349002801 protein binding surface [polypeptide binding]; other site 649349002802 HEAT repeats; Region: HEAT_2; pfam13646 649349002803 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 649349002804 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 649349002805 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 649349002806 23S rRNA binding site [nucleotide binding]; other site 649349002807 L21 binding site [polypeptide binding]; other site 649349002808 L13 binding site [polypeptide binding]; other site 649349002809 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 649349002810 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 649349002811 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 649349002812 active site 649349002813 PHP Thumb interface [polypeptide binding]; other site 649349002814 metal binding site [ion binding]; metal-binding site 649349002815 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 649349002816 generic binding surface II; other site 649349002817 generic binding surface I; other site 649349002818 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 649349002819 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 649349002820 putative acyl-acceptor binding pocket; other site 649349002821 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 649349002822 Ligand binding site; other site 649349002823 metal-binding site 649349002824 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 649349002825 metal ion-dependent adhesion site (MIDAS); other site 649349002826 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 649349002827 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 649349002828 dimerization interface [polypeptide binding]; other site 649349002829 DPS ferroxidase diiron center [ion binding]; other site 649349002830 ion pore; other site 649349002831 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 649349002832 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 649349002833 putative ATP binding site [chemical binding]; other site 649349002834 putative substrate interface [chemical binding]; other site 649349002835 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 649349002836 active site 649349002837 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 649349002838 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349002839 Coenzyme A binding pocket [chemical binding]; other site 649349002840 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 649349002841 exopolyphosphatase; Region: exo_poly_only; TIGR03706 649349002842 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 649349002843 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 649349002844 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349002845 NlpC/P60 family; Region: NLPC_P60; pfam00877 649349002846 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 649349002847 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 649349002848 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 649349002849 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 649349002850 dimer interface [polypeptide binding]; other site 649349002851 active site 649349002852 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 649349002853 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 649349002854 MgtC family; Region: MgtC; pfam02308 649349002855 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 649349002856 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 649349002857 tetramerization interface [polypeptide binding]; other site 649349002858 active site 649349002859 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 649349002860 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 649349002861 catalytic residue [active] 649349002862 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 649349002863 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 649349002864 active site 649349002865 dimer interfaces [polypeptide binding]; other site 649349002866 catalytic residues [active] 649349002867 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 649349002868 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 649349002869 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 649349002870 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 649349002871 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 649349002872 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 649349002873 ligand binding site [chemical binding]; other site 649349002874 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 649349002875 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 649349002876 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 649349002877 MoxR-like ATPases [General function prediction only]; Region: COG0714 649349002878 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 649349002879 Walker A motif; other site 649349002880 ATP binding site [chemical binding]; other site 649349002881 Walker B motif; other site 649349002882 arginine finger; other site 649349002883 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 649349002884 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 649349002885 GrpE; Region: GrpE; pfam01025 649349002886 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 649349002887 dimer interface [polypeptide binding]; other site 649349002888 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 649349002889 chaperone protein DnaJ; Provisional; Region: PRK14289 649349002890 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 649349002891 HSP70 interaction site [polypeptide binding]; other site 649349002892 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 649349002893 substrate binding site [polypeptide binding]; other site 649349002894 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 649349002895 Zn binding sites [ion binding]; other site 649349002896 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 649349002897 dimer interface [polypeptide binding]; other site 649349002898 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 649349002899 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 649349002900 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 649349002901 Peptidase family M48; Region: Peptidase_M48; pfam01435 649349002902 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 649349002903 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 649349002904 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 649349002905 Peptidase family M23; Region: Peptidase_M23; pfam01551 649349002906 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 649349002907 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 649349002908 catalytic triad [active] 649349002909 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 649349002910 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 649349002911 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 649349002912 Penicillinase repressor; Region: Pencillinase_R; pfam03965 649349002913 transketolase; Reviewed; Region: PRK05899 649349002914 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 649349002915 TPP-binding site [chemical binding]; other site 649349002916 dimer interface [polypeptide binding]; other site 649349002917 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 649349002918 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 649349002919 PYR/PP interface [polypeptide binding]; other site 649349002920 dimer interface [polypeptide binding]; other site 649349002921 TPP binding site [chemical binding]; other site 649349002922 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 649349002923 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 649349002924 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349002925 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 649349002926 DNA binding residues [nucleotide binding] 649349002927 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 649349002928 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 649349002929 active site 649349002930 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 649349002931 catalytic triad [active] 649349002932 dimer interface [polypeptide binding]; other site 649349002933 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 649349002934 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 649349002935 FMN binding site [chemical binding]; other site 649349002936 substrate binding site [chemical binding]; other site 649349002937 putative catalytic residue [active] 649349002938 Domain of unknown function (DUF1731); Region: DUF1731; pfam08338 649349002939 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 649349002940 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 649349002941 Ligand Binding Site [chemical binding]; other site 649349002942 PspC domain; Region: PspC; pfam04024 649349002943 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 649349002944 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 649349002945 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 649349002946 FtsX-like permease family; Region: FtsX; pfam02687 649349002947 GMP synthase; Reviewed; Region: guaA; PRK00074 649349002948 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 649349002949 AMP/PPi binding site [chemical binding]; other site 649349002950 candidate oxyanion hole; other site 649349002951 catalytic triad [active] 649349002952 potential glutamine specificity residues [chemical binding]; other site 649349002953 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 649349002954 ATP Binding subdomain [chemical binding]; other site 649349002955 Ligand Binding sites [chemical binding]; other site 649349002956 Dimerization subdomain; other site 649349002957 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 649349002958 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 649349002959 Mg++ binding site [ion binding]; other site 649349002960 putative catalytic motif [active] 649349002961 substrate binding site [chemical binding]; other site 649349002962 putative acyl transferase; Provisional; Region: PRK10502 649349002963 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 649349002964 putative trimer interface [polypeptide binding]; other site 649349002965 putative active site [active] 649349002966 putative substrate binding site [chemical binding]; other site 649349002967 putative CoA binding site [chemical binding]; other site 649349002968 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 649349002969 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 649349002970 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 649349002971 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 649349002972 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 649349002973 active site 649349002974 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 649349002975 Amidohydrolase; Region: Amidohydro_4; pfam13147 649349002976 active site 649349002977 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 649349002978 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 649349002979 active site 649349002980 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 649349002981 active site 649349002982 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 649349002983 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 649349002984 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 649349002985 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 649349002986 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 649349002987 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 649349002988 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349002989 Coenzyme A binding pocket [chemical binding]; other site 649349002990 Protein of unknown function (DUF1271); Region: DUF1271; pfam06902 649349002991 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 649349002992 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 649349002993 putative active site [active] 649349002994 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 649349002995 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 649349002996 Protein export membrane protein; Region: SecD_SecF; cl14618 649349002997 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349002998 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 649349002999 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349003000 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 649349003001 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 649349003002 active site residue [active] 649349003003 hypothetical protein; Reviewed; Region: PRK00024 649349003004 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 649349003005 MPN+ (JAMM) motif; other site 649349003006 Zinc-binding site [ion binding]; other site 649349003007 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 649349003008 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 649349003009 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 649349003010 putative active site [active] 649349003011 catalytic site [active] 649349003012 putative metal binding site [ion binding]; other site 649349003013 oligomer interface [polypeptide binding]; other site 649349003014 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 649349003015 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 649349003016 metal binding site [ion binding]; metal-binding site 649349003017 putative dimer interface [polypeptide binding]; other site 649349003018 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 649349003019 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349003020 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349003021 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349003022 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 649349003023 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349003024 acyl-coenzyme A oxidase; Region: PLN02526 649349003025 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 649349003026 active site 649349003027 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 649349003028 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349003029 ligand binding site [chemical binding]; other site 649349003030 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 649349003031 TPR repeat; Region: TPR_11; pfam13414 649349003032 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 649349003033 binding surface 649349003034 TPR motif; other site 649349003035 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 649349003036 TPR repeat; Region: TPR_11; pfam13414 649349003037 binding surface 649349003038 TPR motif; other site 649349003039 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 649349003040 binding surface 649349003041 TPR motif; other site 649349003042 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 649349003043 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 649349003044 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 649349003045 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 649349003046 ligand binding site [chemical binding]; other site 649349003047 NAD binding site [chemical binding]; other site 649349003048 tetramer interface [polypeptide binding]; other site 649349003049 catalytic site [active] 649349003050 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 649349003051 L-serine binding site [chemical binding]; other site 649349003052 ACT domain interface; other site 649349003053 Conserved TM helix; Region: TM_helix; pfam05552 649349003054 Mechanosensitive ion channel; Region: MS_channel; pfam00924 649349003055 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 649349003056 catalytic residues [active] 649349003057 dimer interface [polypeptide binding]; other site 649349003058 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 649349003059 UbiA prenyltransferase family; Region: UbiA; pfam01040 649349003060 DinB superfamily; Region: DinB_2; pfam12867 649349003061 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349003062 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349003063 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 649349003064 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 649349003065 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 649349003066 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 649349003067 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 649349003068 RNA binding site [nucleotide binding]; other site 649349003069 flavoprotein, HI0933 family; Region: TIGR00275 649349003070 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 649349003071 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 649349003072 active site 649349003073 DNA binding site [nucleotide binding] 649349003074 Int/Topo IB signature motif; other site 649349003075 Pirin-related protein [General function prediction only]; Region: COG1741 649349003076 Pirin; Region: Pirin; pfam02678 649349003077 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 649349003078 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 649349003079 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 649349003080 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 649349003081 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 649349003082 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 649349003083 G1 box; other site 649349003084 GTP/Mg2+ binding site [chemical binding]; other site 649349003085 Switch I region; other site 649349003086 G2 box; other site 649349003087 G3 box; other site 649349003088 Switch II region; other site 649349003089 G4 box; other site 649349003090 G5 box; other site 649349003091 Nucleoside recognition; Region: Gate; pfam07670 649349003092 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 649349003093 Nucleoside recognition; Region: Gate; pfam07670 649349003094 FeoA domain; Region: FeoA; pfam04023 649349003095 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 649349003096 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 649349003097 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 649349003098 glutamate dehydrogenase; Provisional; Region: PRK09414 649349003099 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 649349003100 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 649349003101 NAD(P) binding site [chemical binding]; other site 649349003102 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 649349003103 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 649349003104 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 649349003105 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 649349003106 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 649349003107 recombination protein RecR; Reviewed; Region: recR; PRK00076 649349003108 RecR protein; Region: RecR; pfam02132 649349003109 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 649349003110 putative active site [active] 649349003111 putative metal-binding site [ion binding]; other site 649349003112 tetramer interface [polypeptide binding]; other site 649349003113 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 649349003114 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 649349003115 Na binding site [ion binding]; other site 649349003116 Uncharacterized conserved protein [Function unknown]; Region: COG1262 649349003117 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 649349003118 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 649349003119 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349003120 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 649349003121 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 649349003122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349003123 active site 649349003124 phosphorylation site [posttranslational modification] 649349003125 intermolecular recognition site; other site 649349003126 dimerization interface [polypeptide binding]; other site 649349003127 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 649349003128 DNA binding residues [nucleotide binding] 649349003129 dimerization interface [polypeptide binding]; other site 649349003130 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 649349003131 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 649349003132 active site 649349003133 substrate binding site [chemical binding]; other site 649349003134 ATP binding site [chemical binding]; other site 649349003135 Phosphotransferase enzyme family; Region: APH; pfam01636 649349003136 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 649349003137 Tetratricopeptide repeat; Region: TPR_12; pfam13424 649349003138 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 649349003139 binding surface 649349003140 TPR motif; other site 649349003141 Tetratricopeptide repeat; Region: TPR_12; pfam13424 649349003142 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349003143 ATP binding site [chemical binding]; other site 649349003144 Mg2+ binding site [ion binding]; other site 649349003145 G-X-G motif; other site 649349003146 LytTr DNA-binding domain; Region: LytTR; smart00850 649349003147 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 649349003148 Zn2+ binding site [ion binding]; other site 649349003149 Mg2+ binding site [ion binding]; other site 649349003150 Uncharacterized conserved protein [Function unknown]; Region: COG1284 649349003151 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 649349003152 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 649349003153 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 649349003154 TPR repeat; Region: TPR_11; pfam13414 649349003155 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 649349003156 binding surface 649349003157 TPR motif; other site 649349003158 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 649349003159 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 649349003160 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 649349003161 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 649349003162 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349003163 ligand binding site [chemical binding]; other site 649349003164 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 649349003165 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 649349003166 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 649349003167 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 649349003168 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 649349003169 malate:quinone oxidoreductase; Validated; Region: PRK05257 649349003170 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 649349003171 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 649349003172 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349003173 ligand binding site [chemical binding]; other site 649349003174 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 649349003175 CTP synthetase; Validated; Region: pyrG; PRK05380 649349003176 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 649349003177 Catalytic site [active] 649349003178 active site 649349003179 UTP binding site [chemical binding]; other site 649349003180 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 649349003181 active site 649349003182 putative oxyanion hole; other site 649349003183 catalytic triad [active] 649349003184 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 649349003185 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 649349003186 NADP binding site [chemical binding]; other site 649349003187 dimer interface [polypeptide binding]; other site 649349003188 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 649349003189 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 649349003190 S-adenosylmethionine binding site [chemical binding]; other site 649349003191 PAS domain S-box; Region: sensory_box; TIGR00229 649349003192 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 649349003193 putative active site [active] 649349003194 heme pocket [chemical binding]; other site 649349003195 GAF domain; Region: GAF; pfam01590 649349003196 GAF domain; Region: GAF_2; pfam13185 649349003197 PAS domain S-box; Region: sensory_box; TIGR00229 649349003198 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 649349003199 putative active site [active] 649349003200 heme pocket [chemical binding]; other site 649349003201 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349003202 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 649349003203 dimer interface [polypeptide binding]; other site 649349003204 phosphorylation site [posttranslational modification] 649349003205 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349003206 ATP binding site [chemical binding]; other site 649349003207 Mg2+ binding site [ion binding]; other site 649349003208 G-X-G motif; other site 649349003209 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 649349003210 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349003211 active site 649349003212 phosphorylation site [posttranslational modification] 649349003213 intermolecular recognition site; other site 649349003214 dimerization interface [polypeptide binding]; other site 649349003215 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 649349003216 putative binding surface; other site 649349003217 active site 649349003218 Predicted membrane protein [Function unknown]; Region: COG2261 649349003219 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 649349003220 BON domain; Region: BON; cl02771 649349003221 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349003222 Methyltransferase domain; Region: Methyltransf_31; pfam13847 649349003223 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 649349003224 S-adenosylmethionine binding site [chemical binding]; other site 649349003225 Peptidase family M1; Region: Peptidase_M1; pfam01433 649349003226 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 649349003227 Zn binding site [ion binding]; other site 649349003228 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 649349003229 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349003230 putative substrate translocation pore; other site 649349003231 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 649349003232 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 649349003233 active site 649349003234 catalytic motif [active] 649349003235 Zn binding site [ion binding]; other site 649349003236 Cryptococcal mannosyltransferase 1; Region: CAP59_mtransfer; pfam11735 649349003237 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 649349003238 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 649349003239 oligomerisation interface [polypeptide binding]; other site 649349003240 mobile loop; other site 649349003241 roof hairpin; other site 649349003242 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 649349003243 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 649349003244 ring oligomerisation interface [polypeptide binding]; other site 649349003245 ATP/Mg binding site [chemical binding]; other site 649349003246 stacking interactions; other site 649349003247 hinge regions; other site 649349003248 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 649349003249 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 649349003250 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 649349003251 LemA family; Region: LemA; cl00742 649349003252 Repair protein; Region: Repair_PSII; pfam04536 649349003253 Repair protein; Region: Repair_PSII; pfam04536 649349003254 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 649349003255 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 649349003256 active site 649349003257 DNA binding site [nucleotide binding] 649349003258 Int/Topo IB signature motif; other site 649349003259 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 649349003260 Zn binding site [ion binding]; other site 649349003261 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 649349003262 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 649349003263 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 649349003264 NAD binding site [chemical binding]; other site 649349003265 homodimer interface [polypeptide binding]; other site 649349003266 active site 649349003267 substrate binding site [chemical binding]; other site 649349003268 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 649349003269 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 649349003270 NAD binding site [chemical binding]; other site 649349003271 substrate binding site [chemical binding]; other site 649349003272 homodimer interface [polypeptide binding]; other site 649349003273 active site 649349003274 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 649349003275 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 649349003276 substrate binding site; other site 649349003277 tetramer interface; other site 649349003278 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 649349003279 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 649349003280 proline aminopeptidase P II; Provisional; Region: PRK10879 649349003281 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 649349003282 active site 649349003283 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 649349003284 GDP-Fucose binding site [chemical binding]; other site 649349003285 Glycoside hydrolase families 71, 99, and related domains; Region: GH99_GH71_like; cl01529 649349003286 ligand binding site [chemical binding]; other site 649349003287 putative catalytic site [active] 649349003288 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 649349003289 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349003290 Methyltransferase domain; Region: Methyltransf_24; pfam13578 649349003291 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 649349003292 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 649349003293 FeS/SAM binding site; other site 649349003294 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 649349003295 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 649349003296 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 649349003297 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 649349003298 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 649349003299 oligomer interface [polypeptide binding]; other site 649349003300 metal binding site [ion binding]; metal-binding site 649349003301 metal binding site [ion binding]; metal-binding site 649349003302 Cl binding site [ion binding]; other site 649349003303 aspartate ring; other site 649349003304 basic sphincter; other site 649349003305 putative hydrophobic gate; other site 649349003306 periplasmic entrance; other site 649349003307 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 649349003308 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 649349003309 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 649349003310 catalytic residue [active] 649349003311 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 649349003312 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 649349003313 active site 649349003314 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 649349003315 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349003316 Coenzyme A binding pocket [chemical binding]; other site 649349003317 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 649349003318 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 649349003319 AMP binding site [chemical binding]; other site 649349003320 active site 649349003321 acyl-activating enzyme (AAE) consensus motif; other site 649349003322 CoA binding site [chemical binding]; other site 649349003323 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 649349003324 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 649349003325 non-specific DNA binding site [nucleotide binding]; other site 649349003326 salt bridge; other site 649349003327 sequence-specific DNA binding site [nucleotide binding]; other site 649349003328 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 649349003329 active site 649349003330 HslU subunit interaction site [polypeptide binding]; other site 649349003331 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 649349003332 E3 interaction surface; other site 649349003333 lipoyl attachment site [posttranslational modification]; other site 649349003334 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 649349003335 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 649349003336 E3 interaction surface; other site 649349003337 lipoyl attachment site [posttranslational modification]; other site 649349003338 e3 binding domain; Region: E3_binding; pfam02817 649349003339 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 649349003340 GTP-binding protein LepA; Provisional; Region: PRK05433 649349003341 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 649349003342 G1 box; other site 649349003343 putative GEF interaction site [polypeptide binding]; other site 649349003344 GTP/Mg2+ binding site [chemical binding]; other site 649349003345 Switch I region; other site 649349003346 G2 box; other site 649349003347 G3 box; other site 649349003348 Switch II region; other site 649349003349 G4 box; other site 649349003350 G5 box; other site 649349003351 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 649349003352 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 649349003353 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 649349003354 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 649349003355 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 649349003356 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 649349003357 FtsX-like permease family; Region: FtsX; pfam02687 649349003358 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 649349003359 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 649349003360 catalytic residues [active] 649349003361 catalytic nucleophile [active] 649349003362 Recombinase; Region: Recombinase; pfam07508 649349003363 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 649349003364 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 649349003365 conjugal transfer protein TraL; Provisional; Region: PRK13886 649349003366 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 649349003367 Helix-turn-helix domain; Region: HTH_19; pfam12844 649349003368 non-specific DNA binding site [nucleotide binding]; other site 649349003369 salt bridge; other site 649349003370 sequence-specific DNA binding site [nucleotide binding]; other site 649349003371 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 649349003372 salt bridge; other site 649349003373 non-specific DNA binding site [nucleotide binding]; other site 649349003374 sequence-specific DNA binding site [nucleotide binding]; other site 649349003375 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 649349003376 non-specific DNA binding site [nucleotide binding]; other site 649349003377 salt bridge; other site 649349003378 sequence-specific DNA binding site [nucleotide binding]; other site 649349003379 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 649349003380 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 649349003381 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 649349003382 ATP binding site [chemical binding]; other site 649349003383 putative Mg++ binding site [ion binding]; other site 649349003384 hypothetical protein; Reviewed; Region: PRK12275 649349003385 four helix bundle protein; Region: TIGR02436 649349003386 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 649349003387 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 649349003388 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 649349003389 Virulence protein [General function prediction only]; Region: COG3943 649349003390 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 649349003391 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 649349003392 HsdM N-terminal domain; Region: HsdM_N; pfam12161 649349003393 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 649349003394 S-adenosylmethionine binding site [chemical binding]; other site 649349003395 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 649349003396 non-specific DNA binding site [nucleotide binding]; other site 649349003397 salt bridge; other site 649349003398 sequence-specific DNA binding site [nucleotide binding]; other site 649349003399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349003400 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 649349003401 NAD(P) binding site [chemical binding]; other site 649349003402 active site 649349003403 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 649349003404 putative active site [active] 649349003405 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 649349003406 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 649349003407 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 649349003408 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349003409 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349003410 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349003411 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349003412 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349003413 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349003414 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 649349003415 catalytic residues [active] 649349003416 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 649349003417 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 649349003418 non-specific DNA binding site [nucleotide binding]; other site 649349003419 salt bridge; other site 649349003420 sequence-specific DNA binding site [nucleotide binding]; other site 649349003421 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 649349003422 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349003423 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349003424 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 649349003425 Vitamin K epoxide reductase (VKOR) family in bacteria; Region: VKOR_4; cd12921 649349003426 putative active site [active] 649349003427 redox center [active] 649349003428 Thioredoxin; Region: Thioredoxin_4; cl17273 649349003429 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 649349003430 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 649349003431 putative active site [active] 649349003432 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 649349003433 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349003434 Walker A/P-loop; other site 649349003435 ATP binding site [chemical binding]; other site 649349003436 Q-loop/lid; other site 649349003437 ABC transporter signature motif; other site 649349003438 Walker B; other site 649349003439 D-loop; other site 649349003440 H-loop/switch region; other site 649349003441 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349003442 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349003443 putative active site [active] 649349003444 putative NTP binding site [chemical binding]; other site 649349003445 putative nucleic acid binding site [nucleotide binding]; other site 649349003446 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349003447 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 649349003448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 649349003449 hypothetical protein; Provisional; Region: PRK04233 649349003450 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 649349003451 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 649349003452 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349003453 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 649349003454 catalytic core [active] 649349003455 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 649349003456 Active site serine [active] 649349003457 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 649349003458 nudix motif; other site 649349003459 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 649349003460 TPR motif; other site 649349003461 binding surface 649349003462 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 649349003463 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 649349003464 Coenzyme A binding pocket [chemical binding]; other site 649349003465 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 649349003466 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 649349003467 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 649349003468 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 649349003469 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 649349003470 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 649349003471 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 649349003472 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 649349003473 protein binding site [polypeptide binding]; other site 649349003474 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 649349003475 Domain interface; other site 649349003476 Peptide binding site; other site 649349003477 Active site tetrad [active] 649349003478 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349003479 thiamine monophosphate kinase; Provisional; Region: PRK05731 649349003480 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 649349003481 ATP binding site [chemical binding]; other site 649349003482 dimerization interface [polypeptide binding]; other site 649349003483 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 649349003484 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 649349003485 alpha subunit interface [polypeptide binding]; other site 649349003486 TPP binding site [chemical binding]; other site 649349003487 heterodimer interface [polypeptide binding]; other site 649349003488 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 649349003489 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 649349003490 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 649349003491 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 649349003492 metal binding site [ion binding]; metal-binding site 649349003493 dimer interface [polypeptide binding]; other site 649349003494 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 649349003495 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 649349003496 minor groove reading motif; other site 649349003497 helix-hairpin-helix signature motif; other site 649349003498 substrate binding pocket [chemical binding]; other site 649349003499 active site 649349003500 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 649349003501 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 649349003502 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 649349003503 dimer interface [polypeptide binding]; other site 649349003504 active site 649349003505 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 649349003506 catalytic residues [active] 649349003507 substrate binding site [chemical binding]; other site 649349003508 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 649349003509 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 649349003510 active site 649349003511 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 649349003512 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 649349003513 Lumazine binding domain; Region: Lum_binding; pfam00677 649349003514 Lumazine binding domain; Region: Lum_binding; pfam00677 649349003515 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 649349003516 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 649349003517 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 649349003518 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 649349003519 active site residue [active] 649349003520 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 649349003521 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 649349003522 catalytic core [active] 649349003523 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 649349003524 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 649349003525 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 649349003526 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 649349003527 dimerization interface [polypeptide binding]; other site 649349003528 putative tRNAtyr binding site [nucleotide binding]; other site 649349003529 putative active site [active] 649349003530 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 649349003531 MgtE intracellular N domain; Region: MgtE_N; pfam03448 649349003532 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 649349003533 Divalent cation transporter; Region: MgtE; pfam01769 649349003534 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 649349003535 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 649349003536 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 649349003537 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349003538 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 649349003539 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349003540 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 649349003541 SnoaL-like domain; Region: SnoaL_3; pfam13474 649349003542 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 649349003543 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 649349003544 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 649349003545 Walker A/P-loop; other site 649349003546 ATP binding site [chemical binding]; other site 649349003547 Q-loop/lid; other site 649349003548 ABC transporter signature motif; other site 649349003549 Walker B; other site 649349003550 D-loop; other site 649349003551 H-loop/switch region; other site 649349003552 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 649349003553 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 649349003554 FtsX-like permease family; Region: FtsX; pfam02687 649349003555 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349003556 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349003557 Outer membrane efflux protein; Region: OEP; pfam02321 649349003558 Outer membrane efflux protein; Region: OEP; pfam02321 649349003559 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 649349003560 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 649349003561 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 649349003562 tetramer interface [polypeptide binding]; other site 649349003563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349003564 catalytic residue [active] 649349003565 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 649349003566 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 649349003567 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 649349003568 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 649349003569 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 649349003570 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 649349003571 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 649349003572 OstA-like protein; Region: OstA_2; pfam13100 649349003573 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 649349003574 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 649349003575 Ligand Binding Site [chemical binding]; other site 649349003576 TilS substrate C-terminal domain; Region: TilS_C; smart00977 649349003577 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 649349003578 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 649349003579 Walker A/P-loop; other site 649349003580 ATP binding site [chemical binding]; other site 649349003581 Q-loop/lid; other site 649349003582 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 649349003583 ABC transporter signature motif; other site 649349003584 Walker B; other site 649349003585 D-loop; other site 649349003586 H-loop/switch region; other site 649349003587 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 649349003588 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 649349003589 Cu(I) binding site [ion binding]; other site 649349003590 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 649349003591 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 649349003592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 649349003593 Type III pantothenate kinase; Region: Pan_kinase; cl17198 649349003594 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 649349003595 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349003596 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 649349003597 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 649349003598 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 649349003599 Metal-binding active site; metal-binding site 649349003600 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 649349003601 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 649349003602 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 649349003603 Predicted acyl esterases [General function prediction only]; Region: COG2936 649349003604 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 649349003605 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 649349003606 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 649349003607 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 649349003608 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 649349003609 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349003610 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 649349003611 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 649349003612 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 649349003613 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349003614 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349003615 Beta-lactamase; Region: Beta-lactamase; cl17358 649349003616 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349003617 DinB superfamily; Region: DinB_2; pfam12867 649349003618 DinB family; Region: DinB; cl17821 649349003619 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 649349003620 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 649349003621 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 649349003622 active site 649349003623 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 649349003624 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 649349003625 TrkA-N domain; Region: TrkA_N; pfam02254 649349003626 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 649349003627 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 649349003628 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 649349003629 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349003630 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 649349003631 dimer interface [polypeptide binding]; other site 649349003632 phosphorylation site [posttranslational modification] 649349003633 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349003634 ATP binding site [chemical binding]; other site 649349003635 Mg2+ binding site [ion binding]; other site 649349003636 G-X-G motif; other site 649349003637 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 649349003638 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 649349003639 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 649349003640 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 649349003641 Peptidase family M23; Region: Peptidase_M23; pfam01551 649349003642 GtrA-like protein; Region: GtrA; pfam04138 649349003643 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 649349003644 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 649349003645 active sites [active] 649349003646 tetramer interface [polypeptide binding]; other site 649349003647 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 649349003648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349003649 NAD(P) binding site [chemical binding]; other site 649349003650 active site 649349003651 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 649349003652 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 649349003653 dimer interface [polypeptide binding]; other site 649349003654 active site 649349003655 Phosphopantetheine attachment site; Region: PP-binding; cl09936 649349003656 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 649349003657 putative acyl-acceptor binding pocket; other site 649349003658 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 649349003659 Ligand binding site; other site 649349003660 Putative Catalytic site; other site 649349003661 DXD motif; other site 649349003662 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 649349003663 Predicted exporter [General function prediction only]; Region: COG4258 649349003664 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 649349003665 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 649349003666 putative acyl-acceptor binding pocket; other site 649349003667 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 649349003668 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 649349003669 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 649349003670 active site 649349003671 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 649349003672 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 649349003673 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 649349003674 acyl-activating enzyme (AAE) consensus motif; other site 649349003675 AMP binding site [chemical binding]; other site 649349003676 active site 649349003677 CoA binding site [chemical binding]; other site 649349003678 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 649349003679 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 649349003680 purine nucleoside phosphorylase; Provisional; Region: PRK08202 649349003681 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 649349003682 active site 2 [active] 649349003683 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349003684 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349003685 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 649349003686 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 649349003687 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 649349003688 NodB motif; other site 649349003689 active site 649349003690 catalytic site [active] 649349003691 metal binding site [ion binding]; metal-binding site 649349003692 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 649349003693 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 649349003694 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 649349003695 dimer interface [polypeptide binding]; other site 649349003696 active site 649349003697 Phosphopantetheine attachment site; Region: PP-binding; cl09936 649349003698 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 649349003699 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 649349003700 active site 649349003701 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 649349003702 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 649349003703 active site 649349003704 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 649349003705 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 649349003706 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 649349003707 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 649349003708 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349003709 Walker A/P-loop; other site 649349003710 ATP binding site [chemical binding]; other site 649349003711 Q-loop/lid; other site 649349003712 ABC transporter signature motif; other site 649349003713 Walker B; other site 649349003714 D-loop; other site 649349003715 H-loop/switch region; other site 649349003716 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 649349003717 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 649349003718 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 649349003719 active site 1 [active] 649349003720 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 649349003721 dimer interface [polypeptide binding]; other site 649349003722 active site 1 [active] 649349003723 active site 2 [active] 649349003724 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 649349003725 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 649349003726 dimer interface [polypeptide binding]; other site 649349003727 active site 649349003728 DNA repair protein RadA; Provisional; Region: PRK11823 649349003729 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 649349003730 Walker A motif/ATP binding site; other site 649349003731 ATP binding site [chemical binding]; other site 649349003732 Walker B motif; other site 649349003733 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 649349003734 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349003735 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 649349003736 catalytic nucleophile [active] 649349003737 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 649349003738 Dehydroquinase class II; Region: DHquinase_II; pfam01220 649349003739 active site 649349003740 trimer interface [polypeptide binding]; other site 649349003741 dimer interface [polypeptide binding]; other site 649349003742 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 649349003743 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349003744 catalytic residues [active] 649349003745 6-phosphofructokinase; Provisional; Region: PRK03202 649349003746 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 649349003747 active site 649349003748 ADP/pyrophosphate binding site [chemical binding]; other site 649349003749 dimerization interface [polypeptide binding]; other site 649349003750 allosteric effector site; other site 649349003751 fructose-1,6-bisphosphate binding site; other site 649349003752 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 649349003753 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349003754 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 649349003755 DNA binding residues [nucleotide binding] 649349003756 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349003757 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349003758 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 649349003759 CrcB-like protein; Region: CRCB; cl09114 649349003760 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 649349003761 putative SAM binding site [chemical binding]; other site 649349003762 homodimer interface [polypeptide binding]; other site 649349003763 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 649349003764 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 649349003765 motif II; other site 649349003766 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 649349003767 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 649349003768 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 649349003769 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 649349003770 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 649349003771 Amidohydrolase; Region: Amidohydro_2; pfam04909 649349003772 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 649349003773 binding surface 649349003774 TPR motif; other site 649349003775 TPR repeat; Region: TPR_11; pfam13414 649349003776 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 649349003777 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 649349003778 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 649349003779 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349003780 ligand binding site [chemical binding]; other site 649349003781 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 649349003782 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 649349003783 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 649349003784 non-specific DNA binding site [nucleotide binding]; other site 649349003785 salt bridge; other site 649349003786 sequence-specific DNA binding site [nucleotide binding]; other site 649349003787 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 649349003788 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; cl00148 649349003789 CAP-like domain; other site 649349003790 active site 649349003791 primary dimer interface [polypeptide binding]; other site 649349003792 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 649349003793 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 649349003794 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 649349003795 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 649349003796 FeS/SAM binding site; other site 649349003797 Aspartyl protease; Region: Asp_protease_2; pfam13650 649349003798 inhibitor binding site; inhibition site 649349003799 catalytic motif [active] 649349003800 Catalytic residue [active] 649349003801 Active site flap [active] 649349003802 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 649349003803 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 649349003804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349003805 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349003806 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349003807 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 649349003808 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 649349003809 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 649349003810 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 649349003811 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 649349003812 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 649349003813 active site 649349003814 dimer interface [polypeptide binding]; other site 649349003815 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 649349003816 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 649349003817 active site 649349003818 FMN binding site [chemical binding]; other site 649349003819 substrate binding site [chemical binding]; other site 649349003820 3Fe-4S cluster binding site [ion binding]; other site 649349003821 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 649349003822 domain interface; other site 649349003823 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 649349003824 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 649349003825 putative active site; other site 649349003826 catalytic triad [active] 649349003827 putative dimer interface [polypeptide binding]; other site 649349003828 GLPGLI family protein; Region: GLPGLI; TIGR01200 649349003829 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349003830 ATP-dependent helicase; Provisional; Region: PRK13767 649349003831 Histidine kinase; Region: HisKA_3; pfam07730 649349003832 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 649349003833 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349003834 ATP binding site [chemical binding]; other site 649349003835 Mg2+ binding site [ion binding]; other site 649349003836 G-X-G motif; other site 649349003837 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 649349003838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349003839 active site 649349003840 phosphorylation site [posttranslational modification] 649349003841 intermolecular recognition site; other site 649349003842 dimerization interface [polypeptide binding]; other site 649349003843 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 649349003844 DNA binding residues [nucleotide binding] 649349003845 dimerization interface [polypeptide binding]; other site 649349003846 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349003847 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 649349003848 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 649349003849 N-terminal plug; other site 649349003850 ligand-binding site [chemical binding]; other site 649349003851 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 649349003852 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 649349003853 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 649349003854 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 649349003855 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 649349003856 hinge; other site 649349003857 active site 649349003858 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 649349003859 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 649349003860 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 649349003861 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 649349003862 active site 649349003863 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 649349003864 dimer interface [polypeptide binding]; other site 649349003865 substrate binding site [chemical binding]; other site 649349003866 catalytic residues [active] 649349003867 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 649349003868 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 649349003869 active site 649349003870 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 649349003871 Ligand Binding Site [chemical binding]; other site 649349003872 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 649349003873 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 649349003874 putative NAD(P) binding site [chemical binding]; other site 649349003875 putative active site [active] 649349003876 Protein of unknown function (DUF502); Region: DUF502; cl01107 649349003877 lipoyl synthase; Provisional; Region: PRK05481 649349003878 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 649349003879 FeS/SAM binding site; other site 649349003880 S-adenosylmethionine synthetase; Validated; Region: PRK05250 649349003881 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 649349003882 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 649349003883 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 649349003884 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 649349003885 CoA binding domain; Region: CoA_binding; smart00881 649349003886 CoA-ligase; Region: Ligase_CoA; pfam00549 649349003887 malate dehydrogenase; Reviewed; Region: PRK06223 649349003888 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 649349003889 dimer interface [polypeptide binding]; other site 649349003890 NAD(P) binding site [chemical binding]; other site 649349003891 tetramer (dimer of dimers) interface [polypeptide binding]; other site 649349003892 substrate binding site [chemical binding]; other site 649349003893 Uncharacterized conserved protein [Function unknown]; Region: COG3339 649349003894 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 649349003895 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 649349003896 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 649349003897 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 649349003898 N-acetyl-D-glucosamine binding site [chemical binding]; other site 649349003899 catalytic residue [active] 649349003900 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349003901 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349003902 NAD synthetase; Provisional; Region: PRK13981 649349003903 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 649349003904 multimer interface [polypeptide binding]; other site 649349003905 active site 649349003906 catalytic triad [active] 649349003907 protein interface 1 [polypeptide binding]; other site 649349003908 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 649349003909 homodimer interface [polypeptide binding]; other site 649349003910 NAD binding pocket [chemical binding]; other site 649349003911 ATP binding pocket [chemical binding]; other site 649349003912 Mg binding site [ion binding]; other site 649349003913 active-site loop [active] 649349003914 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 649349003915 putative catalytic site [active] 649349003916 putative metal binding site [ion binding]; other site 649349003917 putative phosphate binding site [ion binding]; other site 649349003918 ribosome maturation protein RimP; Reviewed; Region: PRK00092 649349003919 Sm and related proteins; Region: Sm_like; cl00259 649349003920 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 649349003921 putative oligomer interface [polypeptide binding]; other site 649349003922 putative RNA binding site [nucleotide binding]; other site 649349003923 transcription termination factor NusA; Region: NusA; TIGR01953 649349003924 NusA N-terminal domain; Region: NusA_N; pfam08529 649349003925 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 649349003926 RNA binding site [nucleotide binding]; other site 649349003927 homodimer interface [polypeptide binding]; other site 649349003928 NusA-like KH domain; Region: KH_5; pfam13184 649349003929 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 649349003930 G-X-X-G motif; other site 649349003931 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 649349003932 translation initiation factor IF-2; Region: IF-2; TIGR00487 649349003933 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 649349003934 G1 box; other site 649349003935 putative GEF interaction site [polypeptide binding]; other site 649349003936 GTP/Mg2+ binding site [chemical binding]; other site 649349003937 Switch I region; other site 649349003938 G2 box; other site 649349003939 G3 box; other site 649349003940 Switch II region; other site 649349003941 G4 box; other site 649349003942 G5 box; other site 649349003943 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 649349003944 Translation-initiation factor 2; Region: IF-2; pfam11987 649349003945 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 649349003946 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 649349003947 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 649349003948 S-adenosylmethionine binding site [chemical binding]; other site 649349003949 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 649349003950 N-acetyl-D-glucosamine binding site [chemical binding]; other site 649349003951 catalytic residue [active] 649349003952 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349003953 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349003954 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349003955 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349003956 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 649349003957 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 649349003958 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 649349003959 active site 649349003960 DNA binding site [nucleotide binding] 649349003961 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 649349003962 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 649349003963 putative DNA binding site [nucleotide binding]; other site 649349003964 putative Zn2+ binding site [ion binding]; other site 649349003965 AsnC family; Region: AsnC_trans_reg; pfam01037 649349003966 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 649349003967 active site 649349003968 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 649349003969 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349003970 Walker A/P-loop; other site 649349003971 ATP binding site [chemical binding]; other site 649349003972 Q-loop/lid; other site 649349003973 ABC transporter signature motif; other site 649349003974 Walker B; other site 649349003975 D-loop; other site 649349003976 H-loop/switch region; other site 649349003977 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 649349003978 Putative zinc ribbon domain; Region: DUF164; pfam02591 649349003979 Uncharacterized conserved protein [Function unknown]; Region: COG0327 649349003980 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 649349003981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 649349003982 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 649349003983 Protein of unknown function (DUF456); Region: DUF456; pfam04306 649349003984 aminotransferase AlaT; Validated; Region: PRK09265 649349003985 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 649349003986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349003987 homodimer interface [polypeptide binding]; other site 649349003988 catalytic residue [active] 649349003989 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 649349003990 ATP binding site [chemical binding]; other site 649349003991 active site 649349003992 substrate binding site [chemical binding]; other site 649349003993 tetratricopeptide repeat protein; Provisional; Region: PRK11788 649349003994 von Willebrand factor type A domain; Region: VWA_2; pfam13519 649349003995 metal ion-dependent adhesion site (MIDAS); other site 649349003996 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 649349003997 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 649349003998 Uncharacterized conserved protein [Function unknown]; Region: COG2968 649349003999 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 649349004000 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 649349004001 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 649349004002 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 649349004003 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349004004 ligand binding site [chemical binding]; other site 649349004005 putative carbohydrate kinase; Provisional; Region: PRK10565 649349004006 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 649349004007 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 649349004008 putative substrate binding site [chemical binding]; other site 649349004009 putative ATP binding site [chemical binding]; other site 649349004010 Predicted integral membrane protein [Function unknown]; Region: COG5542 649349004011 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 649349004012 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 649349004013 ADP binding site [chemical binding]; other site 649349004014 magnesium binding site [ion binding]; other site 649349004015 putative shikimate binding site; other site 649349004016 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 649349004017 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 649349004018 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 649349004019 dihydropteroate synthase; Region: DHPS; TIGR01496 649349004020 substrate binding pocket [chemical binding]; other site 649349004021 dimer interface [polypeptide binding]; other site 649349004022 inhibitor binding site; inhibition site 649349004023 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 649349004024 Interdomain contacts; other site 649349004025 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 649349004026 Interdomain contacts; other site 649349004027 Cytokine receptor motif; other site 649349004028 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349004029 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 649349004030 core domain interface [polypeptide binding]; other site 649349004031 delta subunit interface [polypeptide binding]; other site 649349004032 epsilon subunit interface [polypeptide binding]; other site 649349004033 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 649349004034 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 649349004035 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 649349004036 beta subunit interaction interface [polypeptide binding]; other site 649349004037 Walker A motif; other site 649349004038 ATP binding site [chemical binding]; other site 649349004039 Walker B motif; other site 649349004040 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 649349004041 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 649349004042 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349004043 Major Facilitator Superfamily; Region: MFS_1; pfam07690 649349004044 putative substrate translocation pore; other site 649349004045 Entner-Doudoroff aldolase; Region: eda; TIGR01182 649349004046 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 649349004047 active site 649349004048 intersubunit interface [polypeptide binding]; other site 649349004049 catalytic residue [active] 649349004050 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 649349004051 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 649349004052 substrate binding site [chemical binding]; other site 649349004053 ATP binding site [chemical binding]; other site 649349004054 Glucuronate isomerase; Region: UxaC; pfam02614 649349004055 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 649349004056 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 649349004057 galactarate dehydratase; Region: galactar-dH20; TIGR03248 649349004058 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 649349004059 altronate oxidoreductase; Provisional; Region: PRK03643 649349004060 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 649349004061 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 649349004062 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 649349004063 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 649349004064 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 649349004065 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 649349004066 substrate binding pocket [chemical binding]; other site 649349004067 Pectic acid lyase; Region: Pec_lyase; pfam09492 649349004068 Pectinesterase; Region: Pectinesterase; pfam01095 649349004069 putative pectinesterase; Region: PLN02432; cl01911 649349004070 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349004071 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349004072 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349004073 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 649349004074 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349004075 SusD family; Region: SusD; pfam07980 649349004076 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 649349004077 Interdomain contacts; other site 649349004078 Cytokine receptor motif; other site 649349004079 ornithine cyclodeaminase; Validated; Region: PRK06141 649349004080 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 649349004081 Cupin-like domain; Region: Cupin_8; pfam13621 649349004082 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349004083 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 649349004084 dimerization interface [polypeptide binding]; other site 649349004085 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 649349004086 dimer interface [polypeptide binding]; other site 649349004087 phosphorylation site [posttranslational modification] 649349004088 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349004089 ATP binding site [chemical binding]; other site 649349004090 Mg2+ binding site [ion binding]; other site 649349004091 G-X-G motif; other site 649349004092 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 649349004093 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349004094 active site 649349004095 phosphorylation site [posttranslational modification] 649349004096 intermolecular recognition site; other site 649349004097 dimerization interface [polypeptide binding]; other site 649349004098 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 649349004099 DNA binding site [nucleotide binding] 649349004100 CHAT domain; Region: CHAT; pfam12770 649349004101 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 649349004102 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349004103 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 649349004104 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349004105 ligand binding site [chemical binding]; other site 649349004106 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 649349004107 active site 649349004108 catalytic triad [active] 649349004109 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 649349004110 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 649349004111 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 649349004112 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 649349004113 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 649349004114 NADP binding site [chemical binding]; other site 649349004115 homodimer interface [polypeptide binding]; other site 649349004116 active site 649349004117 Transcriptional regulators [Transcription]; Region: PurR; COG1609 649349004118 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 649349004119 DNA binding site [nucleotide binding] 649349004120 domain linker motif; other site 649349004121 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 649349004122 ligand binding site [chemical binding]; other site 649349004123 dimerization interface [polypeptide binding]; other site 649349004124 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 649349004125 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 649349004126 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 649349004127 catalytic residue [active] 649349004128 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 649349004129 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349004130 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349004131 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 649349004132 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 649349004133 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 649349004134 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 649349004135 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 649349004136 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 649349004137 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 649349004138 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 649349004139 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 649349004140 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 649349004141 active site 649349004142 HIGH motif; other site 649349004143 nucleotide binding site [chemical binding]; other site 649349004144 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 649349004145 KMSKS motif; other site 649349004146 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 649349004147 enoyl-CoA hydratase; Provisional; Region: PRK08140 649349004148 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 649349004149 substrate binding site [chemical binding]; other site 649349004150 oxyanion hole (OAH) forming residues; other site 649349004151 trimer interface [polypeptide binding]; other site 649349004152 GTPase RsgA; Reviewed; Region: PRK00098 649349004153 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 649349004154 RNA binding site [nucleotide binding]; other site 649349004155 homodimer interface [polypeptide binding]; other site 649349004156 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 649349004157 GTPase/Zn-binding domain interface [polypeptide binding]; other site 649349004158 GTP/Mg2+ binding site [chemical binding]; other site 649349004159 G4 box; other site 649349004160 G5 box; other site 649349004161 G1 box; other site 649349004162 Switch I region; other site 649349004163 G2 box; other site 649349004164 G3 box; other site 649349004165 Switch II region; other site 649349004166 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 649349004167 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 649349004168 DNA binding residues [nucleotide binding] 649349004169 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 649349004170 DNA protecting protein DprA; Region: dprA; TIGR00732 649349004171 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 649349004172 excinuclease ABC subunit B; Provisional; Region: PRK05298 649349004173 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 649349004174 ATP-binding site [chemical binding]; other site 649349004175 ATP binding site [chemical binding]; other site 649349004176 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 649349004177 nucleotide binding region [chemical binding]; other site 649349004178 ATP-binding site [chemical binding]; other site 649349004179 Ultra-violet resistance protein B; Region: UvrB; pfam12344 649349004180 UvrB/uvrC motif; Region: UVR; pfam02151 649349004181 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349004182 Walker A/P-loop; other site 649349004183 ATP binding site [chemical binding]; other site 649349004184 ABC transporter; Region: ABC_tran; pfam00005 649349004185 Q-loop/lid; other site 649349004186 ABC transporter signature motif; other site 649349004187 Walker B; other site 649349004188 D-loop; other site 649349004189 H-loop/switch region; other site 649349004190 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 649349004191 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 649349004192 active site 649349004193 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 649349004194 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 649349004195 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 649349004196 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 649349004197 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 649349004198 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 649349004199 trimer interface [polypeptide binding]; other site 649349004200 active site 649349004201 UDP-GlcNAc binding site [chemical binding]; other site 649349004202 lipid binding site [chemical binding]; lipid-binding site 649349004203 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 649349004204 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 649349004205 Zn2+ binding site [ion binding]; other site 649349004206 Mg2+ binding site [ion binding]; other site 649349004207 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 649349004208 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 649349004209 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 649349004210 active site 649349004211 dimer interface [polypeptide binding]; other site 649349004212 catalytic nucleophile [active] 649349004213 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 649349004214 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 649349004215 hexamer interface [polypeptide binding]; other site 649349004216 ligand binding site [chemical binding]; other site 649349004217 putative active site [active] 649349004218 NAD(P) binding site [chemical binding]; other site 649349004219 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 649349004220 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 649349004221 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349004222 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 649349004223 phosphoglyceromutase; Provisional; Region: PRK05434 649349004224 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 649349004225 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 649349004226 putative catalytic site [active] 649349004227 putative metal binding site [ion binding]; other site 649349004228 putative phosphate binding site [ion binding]; other site 649349004229 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 649349004230 Part of AAA domain; Region: AAA_19; pfam13245 649349004231 Family description; Region: UvrD_C_2; pfam13538 649349004232 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 649349004233 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349004234 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 649349004235 DNA binding residues [nucleotide binding] 649349004236 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 649349004237 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 649349004238 catalytic site [active] 649349004239 G-X2-G-X-G-K; other site 649349004240 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 649349004241 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 649349004242 active site 649349004243 (T/H)XGH motif; other site 649349004244 Type III pantothenate kinase; Region: Pan_kinase; cl17198 649349004245 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 649349004246 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 649349004247 putative phosphate acyltransferase; Provisional; Region: PRK05331 649349004248 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 649349004249 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 649349004250 dimer interface [polypeptide binding]; other site 649349004251 active site 649349004252 CoA binding pocket [chemical binding]; other site 649349004253 elongation factor P; Validated; Region: PRK00529 649349004254 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 649349004255 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 649349004256 RNA binding site [nucleotide binding]; other site 649349004257 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 649349004258 RNA binding site [nucleotide binding]; other site 649349004259 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 649349004260 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 649349004261 carboxyltransferase (CT) interaction site; other site 649349004262 biotinylation site [posttranslational modification]; other site 649349004263 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 649349004264 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 649349004265 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 649349004266 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 649349004267 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 649349004268 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 649349004269 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 649349004270 active site 649349004271 substrate binding site [chemical binding]; other site 649349004272 metal binding site [ion binding]; metal-binding site 649349004273 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 649349004274 AMP nucleosidase; Provisional; Region: PRK07115 649349004275 TPR repeat; Region: TPR_11; pfam13414 649349004276 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 649349004277 binding surface 649349004278 TPR motif; other site 649349004279 TPR repeat; Region: TPR_11; pfam13414 649349004280 TPR repeat; Region: TPR_11; pfam13414 649349004281 TPR repeat; Region: TPR_11; pfam13414 649349004282 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 649349004283 binding surface 649349004284 TPR motif; other site 649349004285 TPR repeat; Region: TPR_11; pfam13414 649349004286 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 649349004287 TPR motif; other site 649349004288 binding surface 649349004289 TPR repeat; Region: TPR_11; pfam13414 649349004290 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 649349004291 TPR motif; other site 649349004292 binding surface 649349004293 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 649349004294 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 649349004295 active site 649349004296 Int/Topo IB signature motif; other site 649349004297 OsmC-like protein; Region: OsmC; pfam02566 649349004298 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 649349004299 proline aminopeptidase P II; Provisional; Region: PRK10879 649349004300 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 649349004301 active site 649349004302 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 649349004303 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 649349004304 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 649349004305 putative DNA binding site [nucleotide binding]; other site 649349004306 putative Zn2+ binding site [ion binding]; other site 649349004307 AsnC family; Region: AsnC_trans_reg; pfam01037 649349004308 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 649349004309 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 649349004310 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 649349004311 active site 649349004312 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 649349004313 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 649349004314 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 649349004315 dimerization interface [polypeptide binding]; other site 649349004316 active site 649349004317 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 649349004318 Domain of unknown function (DUF303); Region: DUF303; pfam03629 649349004319 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349004320 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 649349004321 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 649349004322 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 649349004323 dimer interface [polypeptide binding]; other site 649349004324 motif 1; other site 649349004325 active site 649349004326 motif 2; other site 649349004327 motif 3; other site 649349004328 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 649349004329 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 649349004330 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 649349004331 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 649349004332 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 649349004333 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 649349004334 active site 649349004335 HIGH motif; other site 649349004336 nucleotide binding site [chemical binding]; other site 649349004337 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 649349004338 KMSK motif region; other site 649349004339 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 649349004340 tRNA binding surface [nucleotide binding]; other site 649349004341 anticodon binding site; other site 649349004342 hypothetical protein; Provisional; Region: PRK11820 649349004343 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 649349004344 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 649349004345 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 649349004346 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 649349004347 Histidine kinase; Region: HisKA_3; pfam07730 649349004348 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349004349 ATP binding site [chemical binding]; other site 649349004350 Mg2+ binding site [ion binding]; other site 649349004351 G-X-G motif; other site 649349004352 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 649349004353 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349004354 active site 649349004355 phosphorylation site [posttranslational modification] 649349004356 intermolecular recognition site; other site 649349004357 dimerization interface [polypeptide binding]; other site 649349004358 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 649349004359 DNA binding residues [nucleotide binding] 649349004360 dimerization interface [polypeptide binding]; other site 649349004361 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 649349004362 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 649349004363 putative DNA binding site [nucleotide binding]; other site 649349004364 putative Zn2+ binding site [ion binding]; other site 649349004365 AsnC family; Region: AsnC_trans_reg; pfam01037 649349004366 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 649349004367 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 649349004368 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 649349004369 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 649349004370 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349004371 catalytic residues [active] 649349004372 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 649349004373 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 649349004374 GatB domain; Region: GatB_Yqey; smart00845 649349004375 gliding motility associated protien GldN; Region: GldN; TIGR03523 649349004376 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 649349004377 GldM N-terminal domain; Region: GldM_N; pfam12081 649349004378 GldM C-terminal domain; Region: GldM_C; pfam12080 649349004379 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 649349004380 gliding motility-associated lipoprotein GldK; Region: GldK_short; TIGR03529 649349004381 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 649349004382 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 649349004383 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 649349004384 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 649349004385 active site 649349004386 Lamin Tail Domain; Region: LTD; pfam00932 649349004387 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 649349004388 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 649349004389 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 649349004390 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 649349004391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349004392 active site 649349004393 phosphorylation site [posttranslational modification] 649349004394 intermolecular recognition site; other site 649349004395 dimerization interface [polypeptide binding]; other site 649349004396 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 649349004397 DNA binding site [nucleotide binding] 649349004398 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 649349004399 dimer interface [polypeptide binding]; other site 649349004400 phosphorylation site [posttranslational modification] 649349004401 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349004402 ATP binding site [chemical binding]; other site 649349004403 Mg2+ binding site [ion binding]; other site 649349004404 G-X-G motif; other site 649349004405 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 649349004406 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 649349004407 active site 649349004408 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 649349004409 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 649349004410 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 649349004411 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 649349004412 dimer interface [polypeptide binding]; other site 649349004413 active site 649349004414 glycine-pyridoxal phosphate binding site [chemical binding]; other site 649349004415 folate binding site [chemical binding]; other site 649349004416 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 649349004417 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 649349004418 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349004419 H+ Antiporter protein; Region: 2A0121; TIGR00900 649349004420 putative substrate translocation pore; other site 649349004421 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349004422 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 649349004423 Transglycosylase; Region: Transgly; cl17702 649349004424 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 649349004425 putative ABC transporter; Region: ycf24; CHL00085 649349004426 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 649349004427 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 649349004428 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 649349004429 active site 649349004430 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349004431 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 649349004432 E3 interaction surface; other site 649349004433 lipoyl attachment site [posttranslational modification]; other site 649349004434 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349004435 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 649349004436 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 649349004437 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 649349004438 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 649349004439 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 649349004440 Oligomerisation domain; Region: Oligomerisation; pfam02410 649349004441 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 649349004442 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 649349004443 Walker A motif; other site 649349004444 ATP binding site [chemical binding]; other site 649349004445 Walker B motif; other site 649349004446 arginine finger; other site 649349004447 Peptidase family M41; Region: Peptidase_M41; pfam01434 649349004448 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 649349004449 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 649349004450 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 649349004451 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 649349004452 MutS domain I; Region: MutS_I; pfam01624 649349004453 MutS domain II; Region: MutS_II; pfam05188 649349004454 MutS domain III; Region: MutS_III; pfam05192 649349004455 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 649349004456 Walker A/P-loop; other site 649349004457 ATP binding site [chemical binding]; other site 649349004458 Q-loop/lid; other site 649349004459 ABC transporter signature motif; other site 649349004460 Walker B; other site 649349004461 D-loop; other site 649349004462 H-loop/switch region; other site 649349004463 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 649349004464 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 649349004465 substrate binding site [chemical binding]; other site 649349004466 metal binding site [ion binding]; metal-binding site 649349004467 dimer interface [polypeptide binding]; other site 649349004468 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 649349004469 putative ligand binding site [chemical binding]; other site 649349004470 putative catalytic site [active] 649349004471 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 649349004472 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 649349004473 active site 649349004474 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 649349004475 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 649349004476 active site 649349004477 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 649349004478 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 649349004479 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 649349004480 dimer interface [polypeptide binding]; other site 649349004481 active site 649349004482 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 649349004483 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 649349004484 AMP binding site [chemical binding]; other site 649349004485 active site 649349004486 acyl-activating enzyme (AAE) consensus motif; other site 649349004487 CoA binding site [chemical binding]; other site 649349004488 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 649349004489 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 649349004490 N-terminal plug; other site 649349004491 ligand-binding site [chemical binding]; other site 649349004492 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 649349004493 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 649349004494 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 649349004495 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 649349004496 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349004497 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 649349004498 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 649349004499 hinge; other site 649349004500 active site 649349004501 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 649349004502 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 649349004503 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 649349004504 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 649349004505 dimer interface [polypeptide binding]; other site 649349004506 putative anticodon binding site; other site 649349004507 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 649349004508 motif 1; other site 649349004509 active site 649349004510 motif 2; other site 649349004511 motif 3; other site 649349004512 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 649349004513 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 649349004514 inhibitor site; inhibition site 649349004515 active site 649349004516 dimer interface [polypeptide binding]; other site 649349004517 catalytic residue [active] 649349004518 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 649349004519 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 649349004520 dimer interface [polypeptide binding]; other site 649349004521 NADP binding site [chemical binding]; other site 649349004522 catalytic residues [active] 649349004523 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 649349004524 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 649349004525 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 649349004526 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 649349004527 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 649349004528 TPR motif; other site 649349004529 binding surface 649349004530 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 649349004531 binding surface 649349004532 TPR motif; other site 649349004533 TPR repeat; Region: TPR_11; pfam13414 649349004534 TPR repeat; Region: TPR_11; pfam13414 649349004535 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 649349004536 binding surface 649349004537 TPR motif; other site 649349004538 TPR repeat; Region: TPR_11; pfam13414 649349004539 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 649349004540 binding surface 649349004541 TPR repeat; Region: TPR_11; pfam13414 649349004542 TPR motif; other site 649349004543 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 649349004544 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 649349004545 putative NADP binding site [chemical binding]; other site 649349004546 putative substrate binding site [chemical binding]; other site 649349004547 active site 649349004548 YceI-like domain; Region: YceI; pfam04264 649349004549 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 649349004550 active sites [active] 649349004551 tetramer interface [polypeptide binding]; other site 649349004552 urocanate hydratase; Provisional; Region: PRK05414 649349004553 imidazolonepropionase; Validated; Region: PRK09356 649349004554 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 649349004555 active site 649349004556 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 649349004557 putative active site [active] 649349004558 putative metal binding site [ion binding]; other site 649349004559 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 649349004560 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 649349004561 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 649349004562 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349004563 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349004564 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 649349004565 N-terminal plug; other site 649349004566 ligand-binding site [chemical binding]; other site 649349004567 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 649349004568 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 649349004569 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 649349004570 HEPN domain; Region: HEPN; cl00824 649349004571 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 649349004572 active site 649349004573 SAM binding site [chemical binding]; other site 649349004574 homodimer interface [polypeptide binding]; other site 649349004575 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 649349004576 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 649349004577 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 649349004578 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 649349004579 Active Sites [active] 649349004580 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 649349004581 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 649349004582 Active Sites [active] 649349004583 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 649349004584 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 649349004585 CysD dimerization site [polypeptide binding]; other site 649349004586 G1 box; other site 649349004587 putative GEF interaction site [polypeptide binding]; other site 649349004588 GTP/Mg2+ binding site [chemical binding]; other site 649349004589 Switch I region; other site 649349004590 G2 box; other site 649349004591 G3 box; other site 649349004592 Switch II region; other site 649349004593 G4 box; other site 649349004594 G5 box; other site 649349004595 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 649349004596 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 649349004597 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 649349004598 dimer interface [polypeptide binding]; other site 649349004599 phosphorylation site [posttranslational modification] 649349004600 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349004601 ATP binding site [chemical binding]; other site 649349004602 Mg2+ binding site [ion binding]; other site 649349004603 G-X-G motif; other site 649349004604 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349004605 Response regulator receiver domain; Region: Response_reg; pfam00072 649349004606 active site 649349004607 phosphorylation site [posttranslational modification] 649349004608 intermolecular recognition site; other site 649349004609 dimerization interface [polypeptide binding]; other site 649349004610 Response regulator receiver domain; Region: Response_reg; pfam00072 649349004611 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349004612 active site 649349004613 phosphorylation site [posttranslational modification] 649349004614 intermolecular recognition site; other site 649349004615 dimerization interface [polypeptide binding]; other site 649349004616 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 649349004617 cyclase homology domain; Region: CHD; cd07302 649349004618 nucleotidyl binding site; other site 649349004619 metal binding site [ion binding]; metal-binding site 649349004620 dimer interface [polypeptide binding]; other site 649349004621 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 649349004622 PQQ-like domain; Region: PQQ_2; pfam13360 649349004623 Trp docking motif [polypeptide binding]; other site 649349004624 putative active site [active] 649349004625 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 649349004626 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 649349004627 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 649349004628 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349004629 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349004630 putative active site [active] 649349004631 putative NTP binding site [chemical binding]; other site 649349004632 putative nucleic acid binding site [nucleotide binding]; other site 649349004633 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349004634 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 649349004635 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 649349004636 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 649349004637 alphaNTD - beta interaction site [polypeptide binding]; other site 649349004638 alphaNTD homodimer interface [polypeptide binding]; other site 649349004639 alphaNTD - beta' interaction site [polypeptide binding]; other site 649349004640 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 649349004641 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 649349004642 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 649349004643 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 649349004644 RNA binding surface [nucleotide binding]; other site 649349004645 30S ribosomal protein S11; Validated; Region: PRK05309 649349004646 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 649349004647 30S ribosomal protein S13; Region: bact_S13; TIGR03631 649349004648 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 649349004649 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 649349004650 rRNA binding site [nucleotide binding]; other site 649349004651 predicted 30S ribosome binding site; other site 649349004652 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 649349004653 active site 649349004654 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 649349004655 SecY translocase; Region: SecY; pfam00344 649349004656 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 649349004657 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 649349004658 23S rRNA binding site [nucleotide binding]; other site 649349004659 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 649349004660 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 649349004661 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 649349004662 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 649349004663 5S rRNA interface [nucleotide binding]; other site 649349004664 23S rRNA interface [nucleotide binding]; other site 649349004665 L5 interface [polypeptide binding]; other site 649349004666 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 649349004667 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 649349004668 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 649349004669 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 649349004670 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 649349004671 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 649349004672 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 649349004673 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 649349004674 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 649349004675 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 649349004676 RNA binding site [nucleotide binding]; other site 649349004677 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 649349004678 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 649349004679 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 649349004680 putative translocon interaction site; other site 649349004681 23S rRNA interface [nucleotide binding]; other site 649349004682 signal recognition particle (SRP54) interaction site; other site 649349004683 L23 interface [polypeptide binding]; other site 649349004684 trigger factor interaction site; other site 649349004685 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 649349004686 23S rRNA interface [nucleotide binding]; other site 649349004687 5S rRNA interface [nucleotide binding]; other site 649349004688 putative antibiotic binding site [chemical binding]; other site 649349004689 L25 interface [polypeptide binding]; other site 649349004690 L27 interface [polypeptide binding]; other site 649349004691 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 649349004692 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 649349004693 G-X-X-G motif; other site 649349004694 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 649349004695 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 649349004696 putative translocon binding site; other site 649349004697 protein-rRNA interface [nucleotide binding]; other site 649349004698 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 649349004699 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 649349004700 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 649349004701 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 649349004702 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 649349004703 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 649349004704 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 649349004705 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 649349004706 NIPSNAP; Region: NIPSNAP; pfam07978 649349004707 NIPSNAP; Region: NIPSNAP; pfam07978 649349004708 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 649349004709 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 649349004710 Amidohydrolase; Region: Amidohydro_4; pfam13147 649349004711 active site 649349004712 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 649349004713 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 649349004714 amidase catalytic site [active] 649349004715 Zn binding residues [ion binding]; other site 649349004716 substrate binding site [chemical binding]; other site 649349004717 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 649349004718 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 649349004719 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 649349004720 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349004721 putative catalytic residue [active] 649349004722 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349004723 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 649349004724 catalytic residues [active] 649349004725 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 649349004726 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 649349004727 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 649349004728 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 649349004729 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 649349004730 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349004731 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 649349004732 putative substrate translocation pore; other site 649349004733 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 649349004734 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349004735 putative substrate translocation pore; other site 649349004736 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 649349004737 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 649349004738 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 649349004739 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 649349004740 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 649349004741 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 649349004742 trmE is a tRNA modification GTPase; Region: trmE; cd04164 649349004743 G1 box; other site 649349004744 GTP/Mg2+ binding site [chemical binding]; other site 649349004745 Switch I region; other site 649349004746 G2 box; other site 649349004747 Switch II region; other site 649349004748 G3 box; other site 649349004749 G4 box; other site 649349004750 G5 box; other site 649349004751 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 649349004752 Transposase; Region: HTH_Tnp_1; pfam01527 649349004753 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 649349004754 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 649349004755 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 649349004756 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 649349004757 Histidine kinase; Region: His_kinase; pfam06580 649349004758 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 649349004759 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349004760 active site 649349004761 phosphorylation site [posttranslational modification] 649349004762 intermolecular recognition site; other site 649349004763 dimerization interface [polypeptide binding]; other site 649349004764 LytTr DNA-binding domain; Region: LytTR; smart00850 649349004765 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 649349004766 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349004767 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349004768 Alginate lyase; Region: Alginate_lyase; pfam05426 649349004769 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 649349004770 Two component regulator propeller; Region: Reg_prop; pfam07494 649349004771 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 649349004772 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349004773 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 649349004774 dimer interface [polypeptide binding]; other site 649349004775 phosphorylation site [posttranslational modification] 649349004776 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349004777 ATP binding site [chemical binding]; other site 649349004778 Mg2+ binding site [ion binding]; other site 649349004779 G-X-G motif; other site 649349004780 Response regulator receiver domain; Region: Response_reg; pfam00072 649349004781 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349004782 active site 649349004783 phosphorylation site [posttranslational modification] 649349004784 intermolecular recognition site; other site 649349004785 dimerization interface [polypeptide binding]; other site 649349004786 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 649349004787 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349004788 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349004789 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 649349004790 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349004791 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349004792 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349004793 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349004794 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349004795 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 649349004796 RibD C-terminal domain; Region: RibD_C; cl17279 649349004797 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 649349004798 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349004799 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349004800 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349004801 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349004802 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349004803 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 649349004804 dimerization interface [polypeptide binding]; other site 649349004805 metal binding site [ion binding]; metal-binding site 649349004806 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 649349004807 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 649349004808 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 649349004809 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349004810 putative substrate translocation pore; other site 649349004811 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349004812 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349004813 putative active site [active] 649349004814 putative NTP binding site [chemical binding]; other site 649349004815 putative nucleic acid binding site [nucleotide binding]; other site 649349004816 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349004817 hydroperoxidase II; Provisional; Region: katE; PRK11249 649349004818 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 649349004819 heme binding pocket [chemical binding]; other site 649349004820 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 649349004821 domain interactions; other site 649349004822 Domain of unknown function DUF20; Region: UPF0118; pfam01594 649349004823 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 649349004824 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 649349004825 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 649349004826 motif II; other site 649349004827 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 649349004828 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 649349004829 BNR repeat-like domain; Region: BNR_2; pfam13088 649349004830 catalytic site [active] 649349004831 Asp-box motif; other site 649349004832 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 649349004833 Asp-box motif; other site 649349004834 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 649349004835 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 649349004836 inhibitor site; inhibition site 649349004837 active site 649349004838 dimer interface [polypeptide binding]; other site 649349004839 catalytic residue [active] 649349004840 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 649349004841 Na binding site [ion binding]; other site 649349004842 HopJ type III effector protein; Region: HopJ; pfam08888 649349004843 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 649349004844 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349004845 ATP binding site [chemical binding]; other site 649349004846 Mg2+ binding site [ion binding]; other site 649349004847 G-X-G motif; other site 649349004848 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 649349004849 ATP binding site [chemical binding]; other site 649349004850 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 649349004851 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 649349004852 Rhomboid family; Region: Rhomboid; cl11446 649349004853 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 649349004854 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 649349004855 TPP-binding site; other site 649349004856 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 649349004857 PYR/PP interface [polypeptide binding]; other site 649349004858 dimer interface [polypeptide binding]; other site 649349004859 TPP binding site [chemical binding]; other site 649349004860 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 649349004861 Predicted ATPase [General function prediction only]; Region: COG3910 649349004862 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349004863 Walker A/P-loop; other site 649349004864 ATP binding site [chemical binding]; other site 649349004865 Q-loop/lid; other site 649349004866 ABC transporter signature motif; other site 649349004867 Walker B; other site 649349004868 D-loop; other site 649349004869 H-loop/switch region; other site 649349004870 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 649349004871 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349004872 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 649349004873 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 649349004874 active site 649349004875 putative substrate binding pocket [chemical binding]; other site 649349004876 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 649349004877 phosphodiesterase; Provisional; Region: PRK12704 649349004878 KH domain; Region: KH_1; pfam00013 649349004879 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 649349004880 Zn2+ binding site [ion binding]; other site 649349004881 Mg2+ binding site [ion binding]; other site 649349004882 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 649349004883 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 649349004884 putative tRNA-binding site [nucleotide binding]; other site 649349004885 B3/4 domain; Region: B3_4; pfam03483 649349004886 tRNA synthetase B5 domain; Region: B5; pfam03484 649349004887 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 649349004888 dimer interface [polypeptide binding]; other site 649349004889 motif 1; other site 649349004890 motif 3; other site 649349004891 motif 2; other site 649349004892 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 649349004893 Penicillinase repressor; Region: Pencillinase_R; pfam03965 649349004894 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 649349004895 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349004896 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 649349004897 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349004898 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 649349004899 threonine synthase; Validated; Region: PRK09225 649349004900 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 649349004901 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 649349004902 catalytic residue [active] 649349004903 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 649349004904 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 649349004905 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 649349004906 catalytic site [active] 649349004907 subunit interface [polypeptide binding]; other site 649349004908 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 649349004909 Ligand Binding Site [chemical binding]; other site 649349004910 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 649349004911 active site 649349004912 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 649349004913 RNAase interaction site [polypeptide binding]; other site 649349004914 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 649349004915 carboxyltransferase (CT) interaction site; other site 649349004916 biotinylation site [posttranslational modification]; other site 649349004917 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 649349004918 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 649349004919 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 649349004920 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 649349004921 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 649349004922 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 649349004923 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 649349004924 active site 649349004925 substrate binding site [chemical binding]; other site 649349004926 coenzyme B12 binding site [chemical binding]; other site 649349004927 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 649349004928 B12 binding site [chemical binding]; other site 649349004929 cobalt ligand [ion binding]; other site 649349004930 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 649349004931 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 649349004932 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 649349004933 Predicted transcriptional regulator [Transcription]; Region: COG2378 649349004934 HTH domain; Region: HTH_11; pfam08279 649349004935 WYL domain; Region: WYL; pfam13280 649349004936 DinB family; Region: DinB; cl17821 649349004937 DinB superfamily; Region: DinB_2; pfam12867 649349004938 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 649349004939 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 649349004940 FAD binding pocket [chemical binding]; other site 649349004941 FAD binding motif [chemical binding]; other site 649349004942 phosphate binding motif [ion binding]; other site 649349004943 beta-alpha-beta structure motif; other site 649349004944 NAD(p) ribose binding residues [chemical binding]; other site 649349004945 NAD binding pocket [chemical binding]; other site 649349004946 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 649349004947 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 649349004948 catalytic loop [active] 649349004949 iron binding site [ion binding]; other site 649349004950 Domain of unknown function DUF11; Region: DUF11; cl17728 649349004951 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 649349004952 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 649349004953 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349004954 putative substrate translocation pore; other site 649349004955 Domain of unknown function (DUF718); Region: DUF718; pfam05336 649349004956 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 649349004957 active site 649349004958 active site 649349004959 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 649349004960 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 649349004961 S-adenosylmethionine binding site [chemical binding]; other site 649349004962 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 649349004963 active site 649349004964 dimer interface [polypeptide binding]; other site 649349004965 metal binding site [ion binding]; metal-binding site 649349004966 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 649349004967 dimerization interface [polypeptide binding]; other site 649349004968 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 649349004969 dimer interface [polypeptide binding]; other site 649349004970 phosphorylation site [posttranslational modification] 649349004971 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349004972 ATP binding site [chemical binding]; other site 649349004973 Mg2+ binding site [ion binding]; other site 649349004974 G-X-G motif; other site 649349004975 high affinity sulphate transporter 1; Region: sulP; TIGR00815 649349004976 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 649349004977 Sulfate transporter family; Region: Sulfate_transp; pfam00916 649349004978 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 649349004979 active site clefts [active] 649349004980 zinc binding site [ion binding]; other site 649349004981 dimer interface [polypeptide binding]; other site 649349004982 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 649349004983 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 649349004984 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 649349004985 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 649349004986 active site 649349004987 YcxB-like protein; Region: YcxB; pfam14317 649349004988 30S ribosomal protein S7; Validated; Region: PRK05302 649349004989 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 649349004990 S17 interaction site [polypeptide binding]; other site 649349004991 S8 interaction site; other site 649349004992 16S rRNA interaction site [nucleotide binding]; other site 649349004993 streptomycin interaction site [chemical binding]; other site 649349004994 23S rRNA interaction site [nucleotide binding]; other site 649349004995 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 649349004996 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 649349004997 classical (c) SDRs; Region: SDR_c; cd05233 649349004998 NAD(P) binding site [chemical binding]; other site 649349004999 active site 649349005000 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 649349005001 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 649349005002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 649349005003 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 649349005004 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 649349005005 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 649349005006 FMN binding site [chemical binding]; other site 649349005007 active site 649349005008 catalytic residues [active] 649349005009 substrate binding site [chemical binding]; other site 649349005010 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 649349005011 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 649349005012 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 649349005013 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 649349005014 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 649349005015 homodimer interface [polypeptide binding]; other site 649349005016 substrate-cofactor binding pocket; other site 649349005017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349005018 catalytic residue [active] 649349005019 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 649349005020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349005021 Walker A/P-loop; other site 649349005022 ATP binding site [chemical binding]; other site 649349005023 Q-loop/lid; other site 649349005024 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 649349005025 ABC transporter; Region: ABC_tran_2; pfam12848 649349005026 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 649349005027 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 649349005028 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 649349005029 WbqC-like protein family; Region: WbqC; pfam08889 649349005030 ATP-grasp domain; Region: ATP-grasp_4; cl17255 649349005031 Uncharacterized conserved protein [Function unknown]; Region: COG2353 649349005032 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 649349005033 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349005034 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 649349005035 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 649349005036 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 649349005037 inhibitor-cofactor binding pocket; inhibition site 649349005038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349005039 catalytic residue [active] 649349005040 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 649349005041 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 649349005042 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 649349005043 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 649349005044 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 649349005045 putative catalytic cysteine [active] 649349005046 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 649349005047 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 649349005048 dimer interface [polypeptide binding]; other site 649349005049 allosteric magnesium binding site [ion binding]; other site 649349005050 active site 649349005051 aspartate-rich active site metal binding site; other site 649349005052 Schiff base residues; other site 649349005053 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 649349005054 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 649349005055 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349005056 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 649349005057 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 649349005058 binding surface 649349005059 TPR motif; other site 649349005060 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 649349005061 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 649349005062 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 649349005063 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349005064 Transposase; Region: HTH_Tnp_1; cl17663 649349005065 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349005066 Helix-turn-helix domain; Region: HTH_28; pfam13518 649349005067 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 649349005068 putative substrate binding site [chemical binding]; other site 649349005069 active site 649349005070 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 649349005071 PKD domain; Region: PKD; pfam00801 649349005072 PKD domain; Region: PKD; pfam00801 649349005073 PKD domain; Region: PKD; pfam00801 649349005074 Domain of unknown function DUF11; Region: DUF11; cl17728 649349005075 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 649349005076 hypothetical protein; Provisional; Region: PRK00955 649349005077 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 649349005078 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 649349005079 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 649349005080 substrate binding site [chemical binding]; other site 649349005081 active site 649349005082 catalytic residues [active] 649349005083 heterodimer interface [polypeptide binding]; other site 649349005084 M28 Zn-Peptidases; Region: M28_like_6; cd08656 649349005085 Peptidase family M28; Region: Peptidase_M28; pfam04389 649349005086 metal binding site [ion binding]; metal-binding site 649349005087 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 649349005088 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 649349005089 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 649349005090 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349005091 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349005092 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349005093 putative active site [active] 649349005094 putative NTP binding site [chemical binding]; other site 649349005095 putative nucleic acid binding site [nucleotide binding]; other site 649349005096 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349005097 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349005098 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349005099 putative active site [active] 649349005100 putative NTP binding site [chemical binding]; other site 649349005101 putative nucleic acid binding site [nucleotide binding]; other site 649349005102 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349005103 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 649349005104 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 649349005105 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 649349005106 Integrase core domain; Region: rve; pfam00665 649349005107 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 649349005108 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349005109 catalytic residues [active] 649349005110 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349005111 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005112 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349005113 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349005114 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349005115 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349005116 Methylamine utilisation protein MauE; Region: MauE; pfam07291 649349005117 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 649349005118 Predicted transcriptional regulator [Transcription]; Region: COG5340 649349005119 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 649349005120 Cupin domain; Region: Cupin_2; cl17218 649349005121 short chain dehydrogenase; Provisional; Region: PRK06123 649349005122 classical (c) SDRs; Region: SDR_c; cd05233 649349005123 NAD(P) binding site [chemical binding]; other site 649349005124 active site 649349005125 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 649349005126 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 649349005127 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 649349005128 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 649349005129 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 649349005130 DNA-binding site [nucleotide binding]; DNA binding site 649349005131 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 649349005132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349005133 homodimer interface [polypeptide binding]; other site 649349005134 catalytic residue [active] 649349005135 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 649349005136 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349005137 Coenzyme A binding pocket [chemical binding]; other site 649349005138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349005139 Response regulator receiver domain; Region: Response_reg; pfam00072 649349005140 active site 649349005141 phosphorylation site [posttranslational modification] 649349005142 intermolecular recognition site; other site 649349005143 dimerization interface [polypeptide binding]; other site 649349005144 LytTr DNA-binding domain; Region: LytTR; smart00850 649349005145 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 649349005146 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 649349005147 Histidine kinase; Region: His_kinase; pfam06580 649349005148 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349005149 ATP binding site [chemical binding]; other site 649349005150 Mg2+ binding site [ion binding]; other site 649349005151 G-X-G motif; other site 649349005152 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 649349005153 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 649349005154 CARDB; Region: CARDB; pfam07705 649349005155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349005156 short chain dehydrogenase; Provisional; Region: PRK07326 649349005157 NAD(P) binding site [chemical binding]; other site 649349005158 active site 649349005159 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 649349005160 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 649349005161 folate binding site [chemical binding]; other site 649349005162 NADP+ binding site [chemical binding]; other site 649349005163 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349005164 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005165 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349005166 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349005167 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349005168 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349005169 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 649349005170 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 649349005171 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 649349005172 Substrate binding site; other site 649349005173 helicase 45; Provisional; Region: PTZ00424 649349005174 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 649349005175 ATP binding site [chemical binding]; other site 649349005176 Mg++ binding site [ion binding]; other site 649349005177 motif III; other site 649349005178 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 649349005179 nucleotide binding region [chemical binding]; other site 649349005180 ATP-binding site [chemical binding]; other site 649349005181 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 649349005182 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 649349005183 active site 649349005184 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 649349005185 active site 649349005186 ferrochelatase; Reviewed; Region: hemH; PRK00035 649349005187 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 649349005188 C-terminal domain interface [polypeptide binding]; other site 649349005189 active site 649349005190 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 649349005191 active site 649349005192 N-terminal domain interface [polypeptide binding]; other site 649349005193 signal recognition particle protein; Provisional; Region: PRK10867 649349005194 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 649349005195 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 649349005196 P loop; other site 649349005197 GTP binding site [chemical binding]; other site 649349005198 Signal peptide binding domain; Region: SRP_SPB; pfam02978 649349005199 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349005200 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349005201 putative active site [active] 649349005202 putative NTP binding site [chemical binding]; other site 649349005203 putative nucleic acid binding site [nucleotide binding]; other site 649349005204 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349005205 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 649349005206 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349005207 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 649349005208 DNA binding residues [nucleotide binding] 649349005209 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 649349005210 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 649349005211 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 649349005212 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 649349005213 FeS/SAM binding site; other site 649349005214 TRAM domain; Region: TRAM; cl01282 649349005215 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 649349005216 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 649349005217 Recombination protein O N terminal; Region: RecO_N; pfam11967 649349005218 Recombination protein O C terminal; Region: RecO_C; pfam02565 649349005219 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 649349005220 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 649349005221 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 649349005222 active site 649349005223 catalytic residues [active] 649349005224 metal binding site [ion binding]; metal-binding site 649349005225 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 649349005226 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 649349005227 domain interfaces; other site 649349005228 active site 649349005229 SCP-2 sterol transfer family; Region: SCP2; pfam02036 649349005230 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 649349005231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349005232 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 649349005233 DNA binding residues [nucleotide binding] 649349005234 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 649349005235 Mechanosensitive ion channel; Region: MS_channel; pfam00924 649349005236 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 649349005237 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 649349005238 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 649349005239 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 649349005240 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 649349005241 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 649349005242 active site 649349005243 homodimer interface [polypeptide binding]; other site 649349005244 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 649349005245 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349005246 Coenzyme A binding pocket [chemical binding]; other site 649349005247 cell division protein FtsA; Region: ftsA; TIGR01174 649349005248 Cell division protein FtsA; Region: FtsA; smart00842 649349005249 Cell division protein FtsA; Region: FtsA; pfam14450 649349005250 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 649349005251 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 649349005252 nucleotide binding site [chemical binding]; other site 649349005253 SulA interaction site; other site 649349005254 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 649349005255 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 649349005256 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 649349005257 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 649349005258 nudix motif; other site 649349005259 Transcriptional regulators [Transcription]; Region: MarR; COG1846 649349005260 MarR family; Region: MarR; pfam01047 649349005261 RIP metalloprotease RseP; Region: TIGR00054 649349005262 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 649349005263 active site 649349005264 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 649349005265 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 649349005266 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 649349005267 putative substrate binding region [chemical binding]; other site 649349005268 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 649349005269 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 649349005270 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 649349005271 L-aspartate oxidase; Provisional; Region: PRK06175 649349005272 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 649349005273 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 649349005274 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 649349005275 putative Iron-sulfur protein interface [polypeptide binding]; other site 649349005276 proximal heme binding site [chemical binding]; other site 649349005277 distal heme binding site [chemical binding]; other site 649349005278 putative dimer interface [polypeptide binding]; other site 649349005279 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349005280 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005281 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349005282 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 649349005283 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349005284 SusD family; Region: SusD; pfam07980 649349005285 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 649349005286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349005287 active site 649349005288 phosphorylation site [posttranslational modification] 649349005289 intermolecular recognition site; other site 649349005290 dimerization interface [polypeptide binding]; other site 649349005291 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 649349005292 DNA binding site [nucleotide binding] 649349005293 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349005294 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 649349005295 dimer interface [polypeptide binding]; other site 649349005296 phosphorylation site [posttranslational modification] 649349005297 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349005298 ATP binding site [chemical binding]; other site 649349005299 Mg2+ binding site [ion binding]; other site 649349005300 G-X-G motif; other site 649349005301 seryl-tRNA synthetase; Provisional; Region: PRK05431 649349005302 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 649349005303 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 649349005304 motif 1; other site 649349005305 dimer interface [polypeptide binding]; other site 649349005306 active site 649349005307 motif 2; other site 649349005308 motif 3; other site 649349005309 aspartate kinase III; Validated; Region: PRK09084 649349005310 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 649349005311 nucleotide binding site [chemical binding]; other site 649349005312 substrate binding site [chemical binding]; other site 649349005313 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 649349005314 dimer interface [polypeptide binding]; other site 649349005315 allosteric regulatory binding pocket; other site 649349005316 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 649349005317 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 649349005318 homopentamer interface [polypeptide binding]; other site 649349005319 active site 649349005320 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 649349005321 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 649349005322 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 649349005323 tetramer interface [polypeptide binding]; other site 649349005324 TPP-binding site [chemical binding]; other site 649349005325 heterodimer interface [polypeptide binding]; other site 649349005326 phosphorylation loop region [posttranslational modification] 649349005327 recombination protein F; Reviewed; Region: recF; PRK00064 649349005328 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349005329 Walker A/P-loop; other site 649349005330 ATP binding site [chemical binding]; other site 649349005331 Q-loop/lid; other site 649349005332 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349005333 ABC transporter signature motif; other site 649349005334 short chain dehydrogenase; Provisional; Region: PRK08628 649349005335 classical (c) SDRs; Region: SDR_c; cd05233 649349005336 NAD(P) binding site [chemical binding]; other site 649349005337 active site 649349005338 triosephosphate isomerase; Provisional; Region: PRK14567 649349005339 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 649349005340 substrate binding site [chemical binding]; other site 649349005341 dimer interface [polypeptide binding]; other site 649349005342 catalytic triad [active] 649349005343 hypothetical protein; Provisional; Region: PRK12378 649349005344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 649349005345 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349005346 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 649349005347 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349005348 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005349 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349005350 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349005351 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349005352 RecX family; Region: RecX; pfam02631 649349005353 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 649349005354 DNA primase, catalytic core; Region: dnaG; TIGR01391 649349005355 CHC2 zinc finger; Region: zf-CHC2; pfam01807 649349005356 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 649349005357 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 649349005358 active site 649349005359 metal binding site [ion binding]; metal-binding site 649349005360 interdomain interaction site; other site 649349005361 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 649349005362 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 649349005363 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 649349005364 P-loop; other site 649349005365 Magnesium ion binding site [ion binding]; other site 649349005366 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 649349005367 Magnesium ion binding site [ion binding]; other site 649349005368 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 649349005369 ParB-like nuclease domain; Region: ParBc; pfam02195 649349005370 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 649349005371 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349005372 ATP binding site [chemical binding]; other site 649349005373 Mg2+ binding site [ion binding]; other site 649349005374 G-X-G motif; other site 649349005375 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 649349005376 anchoring element; other site 649349005377 dimer interface [polypeptide binding]; other site 649349005378 ATP binding site [chemical binding]; other site 649349005379 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 649349005380 active site 649349005381 putative metal-binding site [ion binding]; other site 649349005382 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 649349005383 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 649349005384 dimer interface [polypeptide binding]; other site 649349005385 putative radical transfer pathway; other site 649349005386 diiron center [ion binding]; other site 649349005387 tyrosyl radical; other site 649349005388 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 649349005389 Class I ribonucleotide reductase; Region: RNR_I; cd01679 649349005390 active site 649349005391 dimer interface [polypeptide binding]; other site 649349005392 catalytic residues [active] 649349005393 effector binding site; other site 649349005394 R2 peptide binding site; other site 649349005395 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 649349005396 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 649349005397 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 649349005398 active site 649349005399 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 649349005400 catalytic tetrad [active] 649349005401 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 649349005402 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 649349005403 acyl-activating enzyme (AAE) consensus motif; other site 649349005404 putative AMP binding site [chemical binding]; other site 649349005405 putative active site [active] 649349005406 putative CoA binding site [chemical binding]; other site 649349005407 Haemolytic domain; Region: Haemolytic; pfam01809 649349005408 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 649349005409 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 649349005410 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349005411 Outer membrane efflux protein; Region: OEP; pfam02321 649349005412 Outer membrane efflux protein; Region: OEP; pfam02321 649349005413 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 649349005414 HAMP domain; Region: HAMP; pfam00672 649349005415 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 649349005416 dimer interface [polypeptide binding]; other site 649349005417 phosphorylation site [posttranslational modification] 649349005418 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349005419 ATP binding site [chemical binding]; other site 649349005420 Mg2+ binding site [ion binding]; other site 649349005421 G-X-G motif; other site 649349005422 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 649349005423 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349005424 active site 649349005425 phosphorylation site [posttranslational modification] 649349005426 intermolecular recognition site; other site 649349005427 dimerization interface [polypeptide binding]; other site 649349005428 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 649349005429 DNA binding site [nucleotide binding] 649349005430 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 649349005431 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 649349005432 dimer interface [polypeptide binding]; other site 649349005433 active site 649349005434 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 649349005435 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 649349005436 THF binding site; other site 649349005437 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 649349005438 substrate binding site [chemical binding]; other site 649349005439 THF binding site; other site 649349005440 zinc-binding site [ion binding]; other site 649349005441 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 649349005442 M28 Zn-Peptidases; Region: M28_like_4; cd08015 649349005443 Peptidase family M28; Region: Peptidase_M28; pfam04389 649349005444 metal binding site [ion binding]; metal-binding site 649349005445 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 649349005446 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 649349005447 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 649349005448 nucleotide binding site [chemical binding]; other site 649349005449 N-acetyl-L-glutamate binding site [chemical binding]; other site 649349005450 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005451 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 649349005452 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 649349005453 N-terminal plug; other site 649349005454 ligand-binding site [chemical binding]; other site 649349005455 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005456 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349005457 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349005458 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 649349005459 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 649349005460 MG2 domain; Region: A2M_N; pfam01835 649349005461 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 649349005462 active site 649349005463 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 649349005464 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 649349005465 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 649349005466 putative active site [active] 649349005467 catalytic site [active] 649349005468 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 649349005469 putative active site [active] 649349005470 catalytic site [active] 649349005471 replicative DNA helicase; Region: DnaB; TIGR00665 649349005472 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 649349005473 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 649349005474 Walker A motif; other site 649349005475 ATP binding site [chemical binding]; other site 649349005476 Walker B motif; other site 649349005477 DNA binding loops [nucleotide binding] 649349005478 Family of unknown function (DUF490); Region: DUF490; pfam04357 649349005479 UGMP family protein; Validated; Region: PRK09604 649349005480 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 649349005481 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 649349005482 Transglycosylase; Region: Transgly; pfam00912 649349005483 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 649349005484 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 649349005485 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 649349005486 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 649349005487 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 649349005488 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 649349005489 active site 649349005490 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 649349005491 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 649349005492 non-specific DNA binding site [nucleotide binding]; other site 649349005493 salt bridge; other site 649349005494 sequence-specific DNA binding site [nucleotide binding]; other site 649349005495 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349005496 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349005497 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 649349005498 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 649349005499 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349005500 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005501 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349005502 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349005503 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349005504 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 649349005505 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 649349005506 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 649349005507 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 649349005508 active site 649349005509 metal binding site [ion binding]; metal-binding site 649349005510 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 649349005511 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 649349005512 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 649349005513 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 649349005514 HIGH motif; other site 649349005515 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 649349005516 active site 649349005517 KMSKS motif; other site 649349005518 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 649349005519 tRNA binding surface [nucleotide binding]; other site 649349005520 anticodon binding site; other site 649349005521 Peptidase family S41; Region: Peptidase_S41; pfam03572 649349005522 Active site serine [active] 649349005523 RNA binding activity-knot of a chromodomain; Region: Tudor-knot; pfam11717 649349005524 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349005525 Major Facilitator Superfamily; Region: MFS_1; pfam07690 649349005526 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349005527 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 649349005528 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 649349005529 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 649349005530 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 649349005531 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 649349005532 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 649349005533 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349005534 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 649349005535 dimer interface [polypeptide binding]; other site 649349005536 phosphorylation site [posttranslational modification] 649349005537 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349005538 ATP binding site [chemical binding]; other site 649349005539 Mg2+ binding site [ion binding]; other site 649349005540 G-X-G motif; other site 649349005541 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 649349005542 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349005543 active site 649349005544 phosphorylation site [posttranslational modification] 649349005545 intermolecular recognition site; other site 649349005546 dimerization interface [polypeptide binding]; other site 649349005547 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 649349005548 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349005549 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005550 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349005551 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349005552 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349005553 SusD family; Region: SusD; pfam07980 649349005554 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 649349005555 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; cl17457 649349005556 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 649349005557 K+ potassium transporter; Region: K_trans; pfam02705 649349005558 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 649349005559 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349005560 active site 649349005561 phosphorylation site [posttranslational modification] 649349005562 intermolecular recognition site; other site 649349005563 dimerization interface [polypeptide binding]; other site 649349005564 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 649349005565 DNA binding site [nucleotide binding] 649349005566 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 649349005567 dimer interface [polypeptide binding]; other site 649349005568 phosphorylation site [posttranslational modification] 649349005569 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349005570 ATP binding site [chemical binding]; other site 649349005571 Mg2+ binding site [ion binding]; other site 649349005572 G-X-G motif; other site 649349005573 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 649349005574 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 649349005575 generic binding surface I; other site 649349005576 generic binding surface II; other site 649349005577 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 649349005578 putative active site [active] 649349005579 putative catalytic site [active] 649349005580 putative Mg binding site IVb [ion binding]; other site 649349005581 putative phosphate binding site [ion binding]; other site 649349005582 putative DNA binding site [nucleotide binding]; other site 649349005583 putative Mg binding site IVa [ion binding]; other site 649349005584 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 649349005585 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 649349005586 NAD(P) binding site [chemical binding]; other site 649349005587 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 649349005588 putative active site [active] 649349005589 putative catalytic site [active] 649349005590 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 649349005591 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 649349005592 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 649349005593 FeoA domain; Region: FeoA; pfam04023 649349005594 Predicted transcriptional regulators [Transcription]; Region: COG1510 649349005595 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 649349005596 putative DNA binding site [nucleotide binding]; other site 649349005597 putative Zn2+ binding site [ion binding]; other site 649349005598 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 649349005599 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 649349005600 substrate binding site [chemical binding]; other site 649349005601 ATP binding site [chemical binding]; other site 649349005602 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349005603 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349005604 putative active site [active] 649349005605 putative NTP binding site [chemical binding]; other site 649349005606 putative nucleic acid binding site [nucleotide binding]; other site 649349005607 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349005608 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 649349005609 dimer interface [polypeptide binding]; other site 649349005610 FMN binding site [chemical binding]; other site 649349005611 Predicted transcriptional regulators [Transcription]; Region: COG1733 649349005612 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 649349005613 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 649349005614 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 649349005615 active site 649349005616 metal binding site [ion binding]; metal-binding site 649349005617 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 649349005618 mce related protein; Region: MCE; pfam02470 649349005619 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 649349005620 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 649349005621 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349005622 Penicillinase repressor; Region: Pencillinase_R; pfam03965 649349005623 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 649349005624 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 649349005625 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 649349005626 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 649349005627 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349005628 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 649349005629 Walker A/P-loop; other site 649349005630 ATP binding site [chemical binding]; other site 649349005631 Q-loop/lid; other site 649349005632 ABC transporter signature motif; other site 649349005633 Walker B; other site 649349005634 D-loop; other site 649349005635 H-loop/switch region; other site 649349005636 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349005637 Walker A/P-loop; other site 649349005638 ATP binding site [chemical binding]; other site 649349005639 Q-loop/lid; other site 649349005640 ABC transporter signature motif; other site 649349005641 Walker B; other site 649349005642 D-loop; other site 649349005643 H-loop/switch region; other site 649349005644 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 649349005645 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 649349005646 Beta-Casp domain; Region: Beta-Casp; smart01027 649349005647 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 649349005648 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 649349005649 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 649349005650 active site 649349005651 Zn binding site [ion binding]; other site 649349005652 Uncharacterized conserved protein [Function unknown]; Region: COG2353 649349005653 peptide chain release factor 2; Validated; Region: prfB; PRK00578 649349005654 This domain is found in peptide chain release factors; Region: PCRF; smart00937 649349005655 RF-1 domain; Region: RF-1; pfam00472 649349005656 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 649349005657 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 649349005658 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 649349005659 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 649349005660 active site 649349005661 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 649349005662 Thiamine pyrophosphokinase; Region: TPK; cd07995 649349005663 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 649349005664 active site 649349005665 dimerization interface [polypeptide binding]; other site 649349005666 thiamine binding site [chemical binding]; other site 649349005667 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 649349005668 ATP cone domain; Region: ATP-cone; pfam03477 649349005669 Class I ribonucleotide reductase; Region: RNR_I; cd01679 649349005670 active site 649349005671 dimer interface [polypeptide binding]; other site 649349005672 catalytic residues [active] 649349005673 effector binding site; other site 649349005674 R2 peptide binding site; other site 649349005675 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 649349005676 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 649349005677 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 649349005678 catalytic residue [active] 649349005679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349005680 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 649349005681 NAD(P) binding site [chemical binding]; other site 649349005682 active site 649349005683 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 649349005684 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 649349005685 ATP binding site [chemical binding]; other site 649349005686 putative Mg++ binding site [ion binding]; other site 649349005687 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 649349005688 nucleotide binding region [chemical binding]; other site 649349005689 ATP-binding site [chemical binding]; other site 649349005690 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 649349005691 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 649349005692 active site 649349005693 trimer interface [polypeptide binding]; other site 649349005694 allosteric site; other site 649349005695 active site lid [active] 649349005696 hexamer (dimer of trimers) interface [polypeptide binding]; other site 649349005697 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 649349005698 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 649349005699 Ferritin-like domain; Region: Ferritin; pfam00210 649349005700 ferroxidase diiron center [ion binding]; other site 649349005701 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 649349005702 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 649349005703 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 649349005704 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 649349005705 Glutamine amidotransferase class-I; Region: GATase; pfam00117 649349005706 glutamine binding [chemical binding]; other site 649349005707 catalytic triad [active] 649349005708 SprT-like family; Region: SprT-like; pfam10263 649349005709 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 649349005710 active site 649349005711 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 649349005712 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 649349005713 S-adenosylmethionine binding site [chemical binding]; other site 649349005714 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 649349005715 Helix-turn-helix domain; Region: HTH_18; pfam12833 649349005716 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349005717 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 649349005718 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 649349005719 active site 649349005720 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 649349005721 Cytochrome c; Region: Cytochrom_C; pfam00034 649349005722 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 649349005723 heme-binding residues [chemical binding]; other site 649349005724 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 649349005725 molybdopterin cofactor binding site; other site 649349005726 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 649349005727 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 649349005728 4Fe-4S binding domain; Region: Fer4; cl02805 649349005729 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 649349005730 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 649349005731 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 649349005732 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 649349005733 Cytochrome c; Region: Cytochrom_C; pfam00034 649349005734 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 649349005735 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 649349005736 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 649349005737 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 649349005738 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 649349005739 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 649349005740 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 649349005741 protoheme IX farnesyltransferase; Region: cyoE_ctaB; TIGR01473 649349005742 UbiA prenyltransferase family; Region: UbiA; pfam01040 649349005743 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 649349005744 Subunit I/III interface [polypeptide binding]; other site 649349005745 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 649349005746 Subunit I/III interface [polypeptide binding]; other site 649349005747 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 649349005748 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 649349005749 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 649349005750 Cu(I) binding site [ion binding]; other site 649349005751 Protein of unknown function (DUF420); Region: DUF420; pfam04238 649349005752 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 649349005753 Phage Tail Collar Domain; Region: Collar; pfam07484 649349005754 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349005755 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349005756 ligand binding site [chemical binding]; other site 649349005757 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 649349005758 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349005759 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 649349005760 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cd00538 649349005761 PA/protease or protease-like domain interface [polypeptide binding]; other site 649349005762 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 649349005763 Peptidase family M28; Region: Peptidase_M28; pfam04389 649349005764 metal binding site [ion binding]; metal-binding site 649349005765 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 649349005766 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 649349005767 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 649349005768 active site 649349005769 dimer interface [polypeptide binding]; other site 649349005770 effector binding site; other site 649349005771 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 649349005772 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 649349005773 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 649349005774 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 649349005775 Walker A motif; other site 649349005776 ATP binding site [chemical binding]; other site 649349005777 Walker B motif; other site 649349005778 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 649349005779 L-aspartate oxidase; Provisional; Region: PRK08401 649349005780 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 649349005781 GLPGLI family protein; Region: GLPGLI; TIGR01200 649349005782 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349005783 Transposase; Region: HTH_Tnp_1; cl17663 649349005784 putative transposase OrfB; Reviewed; Region: PHA02517 649349005785 HTH-like domain; Region: HTH_21; pfam13276 649349005786 Integrase core domain; Region: rve; pfam00665 649349005787 Integrase core domain; Region: rve_3; pfam13683 649349005788 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349005789 Transposase; Region: HTH_Tnp_1; cl17663 649349005790 putative transposase OrfB; Reviewed; Region: PHA02517 649349005791 Integrase core domain; Region: rve; pfam00665 649349005792 Integrase core domain; Region: rve_3; pfam13683 649349005793 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 649349005794 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 649349005795 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 649349005796 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 649349005797 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 649349005798 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 649349005799 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 649349005800 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 649349005801 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 649349005802 non-specific DNA binding site [nucleotide binding]; other site 649349005803 salt bridge; other site 649349005804 sequence-specific DNA binding site [nucleotide binding]; other site 649349005805 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 649349005806 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349005807 Helix-turn-helix domain; Region: HTH_31; pfam13560 649349005808 sequence-specific DNA binding site [nucleotide binding]; other site 649349005809 salt bridge; other site 649349005810 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 649349005811 non-specific DNA binding site [nucleotide binding]; other site 649349005812 salt bridge; other site 649349005813 sequence-specific DNA binding site [nucleotide binding]; other site 649349005814 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349005815 SusD family; Region: SusD; pfam07980 649349005816 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349005817 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005818 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349005819 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349005820 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 649349005821 FecR protein; Region: FecR; pfam04773 649349005822 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 649349005823 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349005824 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 649349005825 DNA binding residues [nucleotide binding] 649349005826 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 649349005827 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 649349005828 active site 649349005829 catalytic site [active] 649349005830 DNA polymerase III subunit beta; Validated; Region: PRK05643 649349005831 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 649349005832 putative DNA binding surface [nucleotide binding]; other site 649349005833 dimer interface [polypeptide binding]; other site 649349005834 beta-clamp/clamp loader binding surface; other site 649349005835 beta-clamp/translesion DNA polymerase binding surface; other site 649349005836 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 649349005837 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 649349005838 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005839 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 649349005840 FecR protein; Region: FecR; pfam04773 649349005841 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 649349005842 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349005843 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 649349005844 DNA binding residues [nucleotide binding] 649349005845 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 649349005846 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005847 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 649349005848 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349005849 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349005850 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 649349005851 putative catalytic site [active] 649349005852 putative metal binding site [ion binding]; other site 649349005853 putative phosphate binding site [ion binding]; other site 649349005854 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349005855 SusD family; Region: SusD; pfam07980 649349005856 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349005857 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005858 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349005859 elongation factor G; Reviewed; Region: PRK12739 649349005860 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 649349005861 G1 box; other site 649349005862 putative GEF interaction site [polypeptide binding]; other site 649349005863 GTP/Mg2+ binding site [chemical binding]; other site 649349005864 Switch I region; other site 649349005865 G2 box; other site 649349005866 G3 box; other site 649349005867 Switch II region; other site 649349005868 G4 box; other site 649349005869 G5 box; other site 649349005870 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 649349005871 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 649349005872 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 649349005873 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 649349005874 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 649349005875 ATP binding site [chemical binding]; other site 649349005876 Mg++ binding site [ion binding]; other site 649349005877 motif III; other site 649349005878 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 649349005879 nucleotide binding region [chemical binding]; other site 649349005880 ATP-binding site [chemical binding]; other site 649349005881 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 649349005882 putative DNA binding site [nucleotide binding]; other site 649349005883 dimerization interface [polypeptide binding]; other site 649349005884 putative Zn2+ binding site [ion binding]; other site 649349005885 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349005886 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349005887 SusD family; Region: SusD; pfam07980 649349005888 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005889 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349005890 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349005891 Transcriptional regulators [Transcription]; Region: PurR; COG1609 649349005892 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 649349005893 DNA binding site [nucleotide binding] 649349005894 domain linker motif; other site 649349005895 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 649349005896 ligand binding site [chemical binding]; other site 649349005897 dimerization interface [polypeptide binding]; other site 649349005898 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 649349005899 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 649349005900 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 649349005901 PYR/PP interface [polypeptide binding]; other site 649349005902 dimer interface [polypeptide binding]; other site 649349005903 TPP binding site [chemical binding]; other site 649349005904 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 649349005905 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 649349005906 TPP-binding site [chemical binding]; other site 649349005907 dimer interface [polypeptide binding]; other site 649349005908 acetolactate synthase, small subunit; Region: acolac_sm; TIGR00119 649349005909 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 649349005910 putative valine binding site [chemical binding]; other site 649349005911 dimer interface [polypeptide binding]; other site 649349005912 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 649349005913 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 649349005914 ketol-acid reductoisomerase; Region: ilvC; TIGR00465 649349005915 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 649349005916 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349005917 argininosuccinate synthase; Provisional; Region: PRK13820 649349005918 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 649349005919 Ligand Binding Site [chemical binding]; other site 649349005920 Peptidase family M48; Region: Peptidase_M48; pfam01435 649349005921 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 649349005922 dimer interface [polypeptide binding]; other site 649349005923 putative radical transfer pathway; other site 649349005924 diiron center [ion binding]; other site 649349005925 tyrosyl radical; other site 649349005926 Surface antigen; Region: Bac_surface_Ag; pfam01103 649349005927 Family of unknown function (DUF490); Region: DUF490; pfam04357 649349005928 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349005929 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 649349005930 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 649349005931 TPR motif; other site 649349005932 binding surface 649349005933 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 649349005934 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 649349005935 RNA/DNA hybrid binding site [nucleotide binding]; other site 649349005936 active site 649349005937 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 649349005938 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 649349005939 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 649349005940 high affinity sulphate transporter 1; Region: sulP; TIGR00815 649349005941 Sulfate transporter family; Region: Sulfate_transp; pfam00916 649349005942 Sulfate transporter family; Region: Sulfate_transp; pfam00916 649349005943 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 649349005944 glycerol kinase; Provisional; Region: glpK; PRK00047 649349005945 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 649349005946 nucleotide binding site [chemical binding]; other site 649349005947 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349005948 Major Facilitator Superfamily; Region: MFS_1; pfam07690 649349005949 putative substrate translocation pore; other site 649349005950 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 649349005951 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 649349005952 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 649349005953 putative homodimer interface [polypeptide binding]; other site 649349005954 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 649349005955 heterodimer interface [polypeptide binding]; other site 649349005956 homodimer interface [polypeptide binding]; other site 649349005957 FlgD Tudor-like domain; Region: FLgD_tudor; cl17881 649349005958 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 649349005959 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 649349005960 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 649349005961 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 649349005962 putative active site [active] 649349005963 substrate binding site [chemical binding]; other site 649349005964 putative cosubstrate binding site; other site 649349005965 catalytic site [active] 649349005966 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 649349005967 substrate binding site [chemical binding]; other site 649349005968 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 649349005969 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 649349005970 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 649349005971 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 649349005972 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 649349005973 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 649349005974 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 649349005975 N-terminal plug; other site 649349005976 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 649349005977 ligand-binding site [chemical binding]; other site 649349005978 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 649349005979 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 649349005980 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 649349005981 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 649349005982 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 649349005983 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 649349005984 Putative esterase; Region: Esterase; pfam00756 649349005985 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 649349005986 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 649349005987 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 649349005988 Ca binding site [ion binding]; other site 649349005989 active site 649349005990 homodimer interface [polypeptide binding]; other site 649349005991 catalytic site [active] 649349005992 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 649349005993 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 649349005994 Alpha amylase catalytic domain found in archaeal, bacterial, and plant Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_plant_AmyA; cd11314 649349005995 active site 649349005996 Ca binding site [ion binding]; other site 649349005997 catalytic site [active] 649349005998 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 649349005999 SusE outer membrane protein; Region: SusE; pfam14292 649349006000 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cd12956 649349006001 starch binding site [chemical binding]; other site 649349006002 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cd12956 649349006003 starch binding site [chemical binding]; other site 649349006004 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cd12956 649349006005 starch binding site [chemical binding]; other site 649349006006 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349006007 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349006008 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349006009 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349006010 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349006011 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 649349006012 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349006013 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349006014 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349006015 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349006016 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349006017 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349006018 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349006019 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349006020 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 649349006021 Helix-turn-helix domain; Region: HTH_18; pfam12833 649349006022 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349006023 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 649349006024 active site 649349006025 catalytic residues [active] 649349006026 metal binding site [ion binding]; metal-binding site 649349006027 Transcriptional regulators [Transcription]; Region: PurR; COG1609 649349006028 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 649349006029 DNA binding site [nucleotide binding] 649349006030 domain linker motif; other site 649349006031 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 649349006032 dimerization interface [polypeptide binding]; other site 649349006033 ligand binding site [chemical binding]; other site 649349006034 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349006035 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349006036 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349006037 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 649349006038 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349006039 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349006040 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349006041 SusD family; Region: SusD; pfam07980 649349006042 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 649349006043 Putative esterase; Region: Esterase; pfam00756 649349006044 N-terminal Early set domain associated with the catalytic domain of esterase; Region: E_set_Esterase_N; cd02858 649349006045 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 649349006046 Putative esterase; Region: Esterase; pfam00756 649349006047 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 649349006048 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 649349006049 active site 649349006050 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 649349006051 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 649349006052 inhibitor binding site; inhibition site 649349006053 active site 649349006054 mannonate dehydratase; Provisional; Region: PRK03906 649349006055 mannonate dehydratase; Region: uxuA; TIGR00695 649349006056 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 649349006057 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 649349006058 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 649349006059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349006060 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 649349006061 NAD(P) binding site [chemical binding]; other site 649349006062 active site 649349006063 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 649349006064 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 649349006065 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 649349006066 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 649349006067 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 649349006068 substrate binding site [chemical binding]; other site 649349006069 active site 649349006070 Domain of unknown function (DUF303); Region: DUF303; pfam03629 649349006071 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 649349006072 Domain of unknown function (DUF303); Region: DUF303; pfam03629 649349006073 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 649349006074 Tetratricopeptide repeat; Region: TPR_12; pfam13424 649349006075 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 649349006076 binding surface 649349006077 TPR motif; other site 649349006078 TPR repeat; Region: TPR_11; pfam13414 649349006079 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 649349006080 Histidine kinase; Region: HisKA_3; pfam07730 649349006081 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349006082 ATP binding site [chemical binding]; other site 649349006083 Mg2+ binding site [ion binding]; other site 649349006084 G-X-G motif; other site 649349006085 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 649349006086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349006087 active site 649349006088 phosphorylation site [posttranslational modification] 649349006089 intermolecular recognition site; other site 649349006090 dimerization interface [polypeptide binding]; other site 649349006091 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 649349006092 DNA binding residues [nucleotide binding] 649349006093 dimerization interface [polypeptide binding]; other site 649349006094 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 649349006095 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 649349006096 phosphate binding site [ion binding]; other site 649349006097 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 649349006098 nucleotide binding site [chemical binding]; other site 649349006099 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 649349006100 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 649349006101 short chain dehydrogenase; Validated; Region: PRK08324 649349006102 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 649349006103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349006104 NAD(P) binding site [chemical binding]; other site 649349006105 active site 649349006106 rhamnose-proton symporter; Provisional; Region: PRK13499 649349006107 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 649349006108 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 649349006109 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 649349006110 Transcriptional regulator [Transcription]; Region: LysR; COG0583 649349006111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 649349006112 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 649349006113 dimerization interface [polypeptide binding]; other site 649349006114 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 649349006115 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 649349006116 DNA-binding site [nucleotide binding]; DNA binding site 649349006117 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 649349006118 putative dimerization interface [polypeptide binding]; other site 649349006119 putative ligand binding site [chemical binding]; other site 649349006120 Transcriptional regulators [Transcription]; Region: PurR; COG1609 649349006121 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 649349006122 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 649349006123 PhnA protein; Region: PhnA; pfam03831 649349006124 Predicted membrane protein [Function unknown]; Region: COG2311 649349006125 Protein of unknown function (DUF418); Region: DUF418; cl12135 649349006126 Protein of unknown function (DUF418); Region: DUF418; pfam04235 649349006127 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 649349006128 active site 649349006129 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 649349006130 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 649349006131 Right handed beta helix region; Region: Beta_helix; pfam13229 649349006132 Glycoside hydrolase family 94 N-terminal-like domain of uncharacterized function; Region: GH94N_like_1; cd11747 649349006133 homodimer interface [polypeptide binding]; other site 649349006134 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 649349006135 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 649349006136 Domain of unknown function (DUF718); Region: DUF718; pfam05336 649349006137 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 649349006138 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 649349006139 active site 649349006140 catalytic triad [active] 649349006141 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 649349006142 metal binding site [ion binding]; metal-binding site 649349006143 active site 649349006144 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349006145 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349006146 SusD family; Region: SusD; pfam07980 649349006147 SusD family; Region: SusD; pfam07980 649349006148 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349006149 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349006150 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349006151 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349006152 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 649349006153 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 649349006154 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349006155 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 649349006156 dimer interface [polypeptide binding]; other site 649349006157 phosphorylation site [posttranslational modification] 649349006158 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349006159 ATP binding site [chemical binding]; other site 649349006160 Mg2+ binding site [ion binding]; other site 649349006161 G-X-G motif; other site 649349006162 Response regulator receiver domain; Region: Response_reg; pfam00072 649349006163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349006164 active site 649349006165 phosphorylation site [posttranslational modification] 649349006166 intermolecular recognition site; other site 649349006167 dimerization interface [polypeptide binding]; other site 649349006168 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 649349006169 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349006170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 649349006171 HAMP domain; Region: HAMP; pfam00672 649349006172 PAS domain; Region: PAS; smart00091 649349006173 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349006174 ATP binding site [chemical binding]; other site 649349006175 Mg2+ binding site [ion binding]; other site 649349006176 G-X-G motif; other site 649349006177 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 649349006178 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349006179 active site 649349006180 phosphorylation site [posttranslational modification] 649349006181 intermolecular recognition site; other site 649349006182 dimerization interface [polypeptide binding]; other site 649349006183 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 649349006184 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 649349006185 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 649349006186 FtsX-like permease family; Region: FtsX; pfam02687 649349006187 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 649349006188 FtsX-like permease family; Region: FtsX; pfam02687 649349006189 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 649349006190 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 649349006191 Walker A/P-loop; other site 649349006192 ATP binding site [chemical binding]; other site 649349006193 Q-loop/lid; other site 649349006194 ABC transporter signature motif; other site 649349006195 Walker B; other site 649349006196 D-loop; other site 649349006197 H-loop/switch region; other site 649349006198 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 649349006199 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349006200 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349006201 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 649349006202 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 649349006203 dimerization interface [polypeptide binding]; other site 649349006204 active site 649349006205 metal binding site [ion binding]; metal-binding site 649349006206 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 649349006207 dsRNA binding site [nucleotide binding]; other site 649349006208 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 649349006209 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 649349006210 dimer interface [polypeptide binding]; other site 649349006211 active site 649349006212 acyl carrier protein; Provisional; Region: acpP; PRK00982 649349006213 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 649349006214 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 649349006215 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 649349006216 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 649349006217 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 649349006218 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 649349006219 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 649349006220 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 649349006221 active site 649349006222 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 649349006223 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 649349006224 homodimer interface [polypeptide binding]; other site 649349006225 substrate-cofactor binding pocket; other site 649349006226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349006227 catalytic residue [active] 649349006228 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349006229 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349006230 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 649349006231 elongation factor Tu; Reviewed; Region: PRK12735 649349006232 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 649349006233 G1 box; other site 649349006234 GEF interaction site [polypeptide binding]; other site 649349006235 GTP/Mg2+ binding site [chemical binding]; other site 649349006236 Switch I region; other site 649349006237 G2 box; other site 649349006238 G3 box; other site 649349006239 Switch II region; other site 649349006240 G4 box; other site 649349006241 G5 box; other site 649349006242 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 649349006243 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 649349006244 Antibiotic Binding Site [chemical binding]; other site 649349006245 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 649349006246 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349006247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349006248 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 649349006249 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349006250 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 649349006251 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349006252 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 649349006253 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 649349006254 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 649349006255 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 649349006256 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 649349006257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349006258 catalytic residue [active] 649349006259 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 649349006260 active site 649349006261 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 649349006262 active site 649349006263 ribulose/triose binding site [chemical binding]; other site 649349006264 phosphate binding site [ion binding]; other site 649349006265 substrate (anthranilate) binding pocket [chemical binding]; other site 649349006266 product (indole) binding pocket [chemical binding]; other site 649349006267 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 649349006268 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349006269 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 649349006270 DNA binding residues [nucleotide binding] 649349006271 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 649349006272 active site 649349006273 Membrane protein of unknown function; Region: DUF360; pfam04020 649349006274 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 649349006275 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 649349006276 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 649349006277 metal binding site [ion binding]; metal-binding site 649349006278 Fic family protein [Function unknown]; Region: COG3177 649349006279 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 649349006280 Fic/DOC family; Region: Fic; pfam02661 649349006281 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349006282 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349006283 Transposase; Region: HTH_Tnp_1; pfam01527 649349006284 Transposase; Region: HTH_Tnp_1; cl17663 649349006285 HTH-like domain; Region: HTH_21; pfam13276 649349006286 Integrase core domain; Region: rve; pfam00665 649349006287 Integrase core domain; Region: rve_3; pfam13683 649349006288 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 649349006289 Transposase; Region: HTH_Tnp_1; pfam01527 649349006290 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 649349006291 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 649349006292 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349006293 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 649349006294 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 649349006295 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 649349006296 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 649349006297 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 649349006298 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349006299 catalytic residues [active] 649349006300 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 649349006301 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349006302 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349006303 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349006304 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349006305 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349006306 Methylamine utilisation protein MauE; Region: MauE; pfam07291 649349006307 Transposase; Region: HTH_Tnp_1; cl17663 649349006308 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 649349006309 putative active site [active] 649349006310 Zn binding site [ion binding]; other site 649349006311 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349006312 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 649349006313 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349006314 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 649349006315 DNA binding residues [nucleotide binding] 649349006316 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 649349006317 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349006318 NAD(P) binding site [chemical binding]; other site 649349006319 active site 649349006320 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 649349006321 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 649349006322 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 649349006323 dimer interface [polypeptide binding]; other site 649349006324 tetramer interface [polypeptide binding]; other site 649349006325 PYR/PP interface [polypeptide binding]; other site 649349006326 TPP binding site [chemical binding]; other site 649349006327 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 649349006328 TPP-binding site; other site 649349006329 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 649349006330 putative metal binding site; other site 649349006331 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cd00172 649349006332 serpin-like protein; Provisional; Region: PHA02660 649349006333 reactive center loop; other site 649349006334 META domain; Region: META; cl01245 649349006335 ribonuclease R; Region: RNase_R; TIGR02063 649349006336 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 649349006337 RNB domain; Region: RNB; pfam00773 649349006338 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 649349006339 RNA binding site [nucleotide binding]; other site 649349006340 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 649349006341 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 649349006342 Bacterial sugar transferase; Region: Bac_transf; pfam02397 649349006343 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 649349006344 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 649349006345 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 649349006346 NADP-binding site; other site 649349006347 homotetramer interface [polypeptide binding]; other site 649349006348 substrate binding site [chemical binding]; other site 649349006349 homodimer interface [polypeptide binding]; other site 649349006350 active site 649349006351 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 649349006352 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 649349006353 putative ADP-binding pocket [chemical binding]; other site 649349006354 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 649349006355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349006356 NAD(P) binding site [chemical binding]; other site 649349006357 active site 649349006358 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 649349006359 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 649349006360 NAD binding site [chemical binding]; other site 649349006361 homotetramer interface [polypeptide binding]; other site 649349006362 homodimer interface [polypeptide binding]; other site 649349006363 substrate binding site [chemical binding]; other site 649349006364 active site 649349006365 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 649349006366 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 649349006367 substrate binding site; other site 649349006368 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 649349006369 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 649349006370 metal-binding site 649349006371 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 649349006372 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 649349006373 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 649349006374 trimer interface [polypeptide binding]; other site 649349006375 active site 649349006376 substrate binding site [chemical binding]; other site 649349006377 CoA binding site [chemical binding]; other site 649349006378 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 649349006379 active site 649349006380 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 649349006381 Chain length determinant protein; Region: Wzz; cl15801 649349006382 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 649349006383 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 649349006384 SLBB domain; Region: SLBB; pfam10531 649349006385 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 649349006386 SLBB domain; Region: SLBB; pfam10531 649349006387 SLBB domain; Region: SLBB; pfam10531 649349006388 SLBB domain; Region: SLBB; pfam10531 649349006389 SLBB domain; Region: SLBB; pfam10531 649349006390 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 649349006391 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 649349006392 Mg++ binding site [ion binding]; other site 649349006393 putative catalytic motif [active] 649349006394 putative substrate binding site [chemical binding]; other site 649349006395 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349006396 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 649349006397 dimerization interface [polypeptide binding]; other site 649349006398 putative DNA binding site [nucleotide binding]; other site 649349006399 putative Zn2+ binding site [ion binding]; other site 649349006400 Low molecular weight phosphatase family; Region: LMWPc; cl00105 649349006401 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 649349006402 arsenical-resistance protein; Region: acr3; TIGR00832 649349006403 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 649349006404 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 649349006405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 649349006406 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 649349006407 C-terminal peptidase (prc); Region: prc; TIGR00225 649349006408 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 649349006409 protein binding site [polypeptide binding]; other site 649349006410 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 649349006411 Catalytic dyad [active] 649349006412 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 649349006413 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 649349006414 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 649349006415 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 649349006416 PA14 domain; Region: PA14; cl08459 649349006417 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 649349006418 Cytochrome c; Region: Cytochrom_C; cl11414 649349006419 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 649349006420 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 649349006421 DNA interaction; other site 649349006422 Metal-binding active site; metal-binding site 649349006423 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 649349006424 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 649349006425 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 649349006426 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 649349006427 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 649349006428 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 649349006429 Walker A/P-loop; other site 649349006430 ATP binding site [chemical binding]; other site 649349006431 Q-loop/lid; other site 649349006432 ABC transporter signature motif; other site 649349006433 Walker B; other site 649349006434 D-loop; other site 649349006435 H-loop/switch region; other site 649349006436 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 649349006437 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 649349006438 periplasmic chaperone; Provisional; Region: PRK10780 649349006439 Staphylococcal nuclease homologues; Region: SNc; smart00318 649349006440 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 649349006441 Catalytic site; other site 649349006442 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 649349006443 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 649349006444 Walker A/P-loop; other site 649349006445 ATP binding site [chemical binding]; other site 649349006446 Q-loop/lid; other site 649349006447 ABC transporter signature motif; other site 649349006448 Walker B; other site 649349006449 D-loop; other site 649349006450 H-loop/switch region; other site 649349006451 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 649349006452 DHH family; Region: DHH; pfam01368 649349006453 DHHA1 domain; Region: DHHA1; pfam02272 649349006454 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 649349006455 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 649349006456 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349006457 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 649349006458 ligand binding site [chemical binding]; other site 649349006459 flexible hinge region; other site 649349006460 Outer membrane efflux protein; Region: OEP; pfam02321 649349006461 Outer membrane efflux protein; Region: OEP; pfam02321 649349006462 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 649349006463 E3 interaction surface; other site 649349006464 lipoyl attachment site [posttranslational modification]; other site 649349006465 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 649349006466 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 649349006467 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 649349006468 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 649349006469 active site 649349006470 catalytic residues [active] 649349006471 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 649349006472 putative transporter; Provisional; Region: PRK10484 649349006473 Na binding site [ion binding]; other site 649349006474 substrate binding site [chemical binding]; other site 649349006475 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 649349006476 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 649349006477 intersubunit interface [polypeptide binding]; other site 649349006478 active site 649349006479 Zn2+ binding site [ion binding]; other site 649349006480 L-arabinose isomerase; Provisional; Region: PRK02929 649349006481 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 649349006482 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 649349006483 trimer interface [polypeptide binding]; other site 649349006484 putative substrate binding site [chemical binding]; other site 649349006485 putative metal binding site [ion binding]; other site 649349006486 ribulokinase; Provisional; Region: PRK04123 649349006487 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 649349006488 N- and C-terminal domain interface [polypeptide binding]; other site 649349006489 active site 649349006490 MgATP binding site [chemical binding]; other site 649349006491 catalytic site [active] 649349006492 metal binding site [ion binding]; metal-binding site 649349006493 carbohydrate binding site [chemical binding]; other site 649349006494 homodimer interface [polypeptide binding]; other site 649349006495 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 649349006496 nudix motif; other site 649349006497 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 649349006498 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 649349006499 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 649349006500 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 649349006501 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 649349006502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 649349006503 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 649349006504 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 649349006505 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349006506 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349006507 FecR protein; Region: FecR; pfam04773 649349006508 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 649349006509 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349006510 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 649349006511 DNA binding residues [nucleotide binding] 649349006512 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349006513 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349006514 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349006515 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 649349006516 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349006517 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 649349006518 DNA binding residues [nucleotide binding] 649349006519 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 649349006520 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 649349006521 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 649349006522 FeS/SAM binding site; other site 649349006523 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 649349006524 active site 649349006525 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 649349006526 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 649349006527 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349006528 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349006529 SusD family; Region: SusD; pfam07980 649349006530 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349006531 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349006532 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349006533 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349006534 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 649349006535 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 649349006536 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349006537 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 649349006538 dimer interface [polypeptide binding]; other site 649349006539 phosphorylation site [posttranslational modification] 649349006540 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349006541 ATP binding site [chemical binding]; other site 649349006542 Mg2+ binding site [ion binding]; other site 649349006543 G-X-G motif; other site 649349006544 Response regulator receiver domain; Region: Response_reg; pfam00072 649349006545 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349006546 active site 649349006547 phosphorylation site [posttranslational modification] 649349006548 intermolecular recognition site; other site 649349006549 dimerization interface [polypeptide binding]; other site 649349006550 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 649349006551 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349006552 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 649349006553 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 649349006554 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 649349006555 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 649349006556 non-specific DNA binding site [nucleotide binding]; other site 649349006557 salt bridge; other site 649349006558 sequence-specific DNA binding site [nucleotide binding]; other site 649349006559 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 649349006560 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 649349006561 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 649349006562 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 649349006563 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 649349006564 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 649349006565 motif II; other site 649349006566 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 649349006567 HTH-like domain; Region: HTH_21; pfam13276 649349006568 Integrase core domain; Region: rve; pfam00665 649349006569 Integrase core domain; Region: rve_3; pfam13683 649349006570 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349006571 Transposase; Region: HTH_Tnp_1; pfam01527 649349006572 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349006573 Response regulator receiver domain; Region: Response_reg; pfam00072 649349006574 active site 649349006575 phosphorylation site [posttranslational modification] 649349006576 intermolecular recognition site; other site 649349006577 dimerization interface [polypeptide binding]; other site 649349006578 LytTr DNA-binding domain; Region: LytTR; smart00850 649349006579 Histidine kinase; Region: His_kinase; pfam06580 649349006580 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 649349006581 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 649349006582 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 649349006583 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 649349006584 active site 649349006585 HIGH motif; other site 649349006586 nucleotide binding site [chemical binding]; other site 649349006587 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 649349006588 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 649349006589 active site 649349006590 KMSKS motif; other site 649349006591 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 649349006592 tRNA binding surface [nucleotide binding]; other site 649349006593 anticodon binding site; other site 649349006594 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 649349006595 LytTr DNA-binding domain; Region: LytTR; smart00850 649349006596 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 649349006597 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349006598 putative substrate translocation pore; other site 649349006599 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 649349006600 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 649349006601 HflX GTPase family; Region: HflX; cd01878 649349006602 G1 box; other site 649349006603 GTP/Mg2+ binding site [chemical binding]; other site 649349006604 Switch I region; other site 649349006605 G2 box; other site 649349006606 G3 box; other site 649349006607 Switch II region; other site 649349006608 G4 box; other site 649349006609 G5 box; other site 649349006610 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 649349006611 SmpB-tmRNA interface; other site 649349006612 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 649349006613 active site 649349006614 dimerization interface [polypeptide binding]; other site 649349006615 peptide chain release factor 1; Validated; Region: prfA; PRK00591 649349006616 This domain is found in peptide chain release factors; Region: PCRF; smart00937 649349006617 RF-1 domain; Region: RF-1; pfam00472 649349006618 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349006619 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 649349006620 GLPGLI family protein; Region: GLPGLI; TIGR01200 649349006621 TPR repeat; Region: TPR_11; pfam13414 649349006622 TPR repeat; Region: TPR_11; pfam13414 649349006623 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 649349006624 binding surface 649349006625 TPR motif; other site 649349006626 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 649349006627 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 649349006628 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 649349006629 MG2 domain; Region: A2M_N; pfam01835 649349006630 Alpha-2-macroglobulin family; Region: A2M; pfam00207 649349006631 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 649349006632 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 649349006633 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 649349006634 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 649349006635 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 649349006636 4Fe-4S binding domain; Region: Fer4; cl02805 649349006637 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 649349006638 DNA binding domain, excisionase family; Region: excise; TIGR01764 649349006639 PIN domain; Region: PIN_3; pfam13470 649349006640 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 649349006641 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 649349006642 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 649349006643 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 649349006644 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 649349006645 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 649349006646 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 649349006647 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 649349006648 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 649349006649 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 649349006650 Flavodoxin; Region: Flavodoxin_1; pfam00258 649349006651 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 649349006652 FAD binding pocket [chemical binding]; other site 649349006653 conserved FAD binding motif [chemical binding]; other site 649349006654 phosphate binding motif [ion binding]; other site 649349006655 beta-alpha-beta structure motif; other site 649349006656 NAD binding pocket [chemical binding]; other site 649349006657 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 649349006658 ApbE family; Region: ApbE; pfam02424 649349006659 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349006660 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349006661 putative active site [active] 649349006662 putative NTP binding site [chemical binding]; other site 649349006663 putative nucleic acid binding site [nucleotide binding]; other site 649349006664 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349006665 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 649349006666 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 649349006667 Protein export membrane protein; Region: SecD_SecF; cl14618 649349006668 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349006669 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 649349006670 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349006671 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 649349006672 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 649349006673 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 649349006674 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 649349006675 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 649349006676 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 649349006677 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 649349006678 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 649349006679 multifunctional aminopeptidase A; Provisional; Region: PRK00913 649349006680 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 649349006681 interface (dimer of trimers) [polypeptide binding]; other site 649349006682 Substrate-binding/catalytic site; other site 649349006683 Zn-binding sites [ion binding]; other site 649349006684 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 649349006685 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 649349006686 active site 649349006687 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 649349006688 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 649349006689 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 649349006690 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 649349006691 Conserved TM helix; Region: TM_helix; pfam05552 649349006692 Mechanosensitive ion channel; Region: MS_channel; pfam00924 649349006693 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 649349006694 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 649349006695 RNA binding site [nucleotide binding]; other site 649349006696 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 649349006697 RNA binding site [nucleotide binding]; other site 649349006698 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 649349006699 RNA binding site [nucleotide binding]; other site 649349006700 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 649349006701 RNA binding site [nucleotide binding]; other site 649349006702 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 649349006703 RNA binding site [nucleotide binding]; other site 649349006704 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 649349006705 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 649349006706 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 649349006707 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 649349006708 ABC transporter; Region: ABC_tran_2; pfam12848 649349006709 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 649349006710 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 649349006711 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 649349006712 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 649349006713 Beta-lactamase; Region: Beta-lactamase; cl17358 649349006714 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349006715 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 649349006716 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 649349006717 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 649349006718 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 649349006719 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 649349006720 Alpha-L-fucosidase; Region: Alpha_L_fucos; pfam01120 649349006721 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 649349006722 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 649349006723 active site 649349006724 catalytic site [active] 649349006725 substrate binding site [chemical binding]; other site 649349006726 quinolinate synthetase; Provisional; Region: PRK09375 649349006727 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 649349006728 binding surface 649349006729 TPR motif; other site 649349006730 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 649349006731 Bacterial Ig-like domain; Region: Big_5; pfam13205 649349006732 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 649349006733 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 649349006734 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 649349006735 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 649349006736 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 649349006737 putative catalytic site [active] 649349006738 putative metal binding site [ion binding]; other site 649349006739 putative phosphate binding site [ion binding]; other site 649349006740 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 649349006741 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 649349006742 active site 649349006743 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 649349006744 active site 649349006745 Zn binding site [ion binding]; other site 649349006746 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 649349006747 active site 649349006748 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 649349006749 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 649349006750 ATP binding site [chemical binding]; other site 649349006751 putative Mg++ binding site [ion binding]; other site 649349006752 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 649349006753 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 649349006754 nucleotide binding region [chemical binding]; other site 649349006755 ATP-binding site [chemical binding]; other site 649349006756 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 649349006757 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 649349006758 FeS/SAM binding site; other site 649349006759 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 649349006760 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 649349006761 active site 649349006762 nucleophile elbow; other site 649349006763 Cupin-like domain; Region: Cupin_8; pfam13621 649349006764 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349006765 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349006766 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349006767 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 649349006768 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 649349006769 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 649349006770 ATP binding site [chemical binding]; other site 649349006771 putative Mg++ binding site [ion binding]; other site 649349006772 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 649349006773 nucleotide binding region [chemical binding]; other site 649349006774 ATP-binding site [chemical binding]; other site 649349006775 TRCF domain; Region: TRCF; pfam03461 649349006776 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 649349006777 gliding motility-associated lipoprotein GldJ; Region: GldJ_short; TIGR03530 649349006778 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 649349006779 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349006780 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349006781 putative active site [active] 649349006782 putative NTP binding site [chemical binding]; other site 649349006783 putative nucleic acid binding site [nucleotide binding]; other site 649349006784 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349006785 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 649349006786 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 649349006787 tetrameric interface [polypeptide binding]; other site 649349006788 activator binding site; other site 649349006789 NADP binding site [chemical binding]; other site 649349006790 substrate binding site [chemical binding]; other site 649349006791 catalytic residues [active] 649349006792 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 649349006793 Peptide-N-glycosidase F, N terminal; Region: N-glycanase_N; pfam09112 649349006794 Peptide-N-glycosidase F, C terminal; Region: N-glycanase_C; pfam09113 649349006795 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 649349006796 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 649349006797 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 649349006798 23S rRNA interface [nucleotide binding]; other site 649349006799 L7/L12 interface [polypeptide binding]; other site 649349006800 putative thiostrepton binding site; other site 649349006801 L25 interface [polypeptide binding]; other site 649349006802 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 649349006803 mRNA/rRNA interface [nucleotide binding]; other site 649349006804 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 649349006805 23S rRNA interface [nucleotide binding]; other site 649349006806 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 649349006807 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 649349006808 core dimer interface [polypeptide binding]; other site 649349006809 peripheral dimer interface [polypeptide binding]; other site 649349006810 L10 interface [polypeptide binding]; other site 649349006811 L11 interface [polypeptide binding]; other site 649349006812 putative EF-Tu interaction site [polypeptide binding]; other site 649349006813 putative EF-G interaction site [polypeptide binding]; other site 649349006814 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349006815 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349006816 putative active site [active] 649349006817 putative NTP binding site [chemical binding]; other site 649349006818 putative nucleic acid binding site [nucleotide binding]; other site 649349006819 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349006820 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 649349006821 Histidine kinase; Region: HisKA_2; pfam07568 649349006822 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349006823 ATP binding site [chemical binding]; other site 649349006824 Mg2+ binding site [ion binding]; other site 649349006825 G-X-G motif; other site 649349006826 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 649349006827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349006828 active site 649349006829 phosphorylation site [posttranslational modification] 649349006830 intermolecular recognition site; other site 649349006831 dimerization interface [polypeptide binding]; other site 649349006832 LytTr DNA-binding domain; Region: LytTR; smart00850 649349006833 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 649349006834 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 649349006835 FOG: PKD repeat [General function prediction only]; Region: COG3291 649349006836 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 649349006837 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 649349006838 Trp docking motif [polypeptide binding]; other site 649349006839 PQQ-like domain; Region: PQQ_2; pfam13360 649349006840 active site 649349006841 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 649349006842 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 649349006843 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 649349006844 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 649349006845 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 649349006846 RPB12 interaction site [polypeptide binding]; other site 649349006847 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 649349006848 RPB3 interaction site [polypeptide binding]; other site 649349006849 RPB1 interaction site [polypeptide binding]; other site 649349006850 RPB11 interaction site [polypeptide binding]; other site 649349006851 RPB10 interaction site [polypeptide binding]; other site 649349006852 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 649349006853 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 649349006854 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 649349006855 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 649349006856 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 649349006857 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 649349006858 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 649349006859 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 649349006860 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 649349006861 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 649349006862 Peptidase family M23; Region: Peptidase_M23; pfam01551 649349006863 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 649349006864 DNA binding site [nucleotide binding] 649349006865 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 649349006866 LytTr DNA-binding domain; Region: LytTR; smart00850 649349006867 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 649349006868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349006869 active site 649349006870 phosphorylation site [posttranslational modification] 649349006871 intermolecular recognition site; other site 649349006872 dimerization interface [polypeptide binding]; other site 649349006873 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 649349006874 DNA binding site [nucleotide binding] 649349006875 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349006876 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 649349006877 dimer interface [polypeptide binding]; other site 649349006878 phosphorylation site [posttranslational modification] 649349006879 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349006880 ATP binding site [chemical binding]; other site 649349006881 Mg2+ binding site [ion binding]; other site 649349006882 G-X-G motif; other site 649349006883 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349006884 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349006885 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349006886 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349006887 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349006888 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349006889 putative transporter; Provisional; Region: PRK10504 649349006890 putative substrate translocation pore; other site 649349006891 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349006892 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 649349006893 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 649349006894 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 649349006895 FAD binding domain; Region: FAD_binding_4; pfam01565 649349006896 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 649349006897 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 649349006898 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 649349006899 active site 649349006900 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 649349006901 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 649349006902 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 649349006903 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 649349006904 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 649349006905 Probable Catalytic site; other site 649349006906 metal-binding site 649349006907 aspartate aminotransferase; Provisional; Region: PRK05764 649349006908 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 649349006909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349006910 homodimer interface [polypeptide binding]; other site 649349006911 catalytic residue [active] 649349006912 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 649349006913 MraW methylase family; Region: Methyltransf_5; cl17771 649349006914 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 649349006915 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 649349006916 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 649349006917 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 649349006918 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 649349006919 putative active site [active] 649349006920 Zn binding site [ion binding]; other site 649349006921 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349006922 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 649349006923 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 649349006924 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 649349006925 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 649349006926 protein binding site [polypeptide binding]; other site 649349006927 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 649349006928 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 649349006929 putative dimer interface [polypeptide binding]; other site 649349006930 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 649349006931 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 649349006932 active site 649349006933 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349006934 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 649349006935 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 649349006936 dimerization interface [polypeptide binding]; other site 649349006937 active site 649349006938 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 649349006939 Ligand binding site; other site 649349006940 Putative Catalytic site; other site 649349006941 DXD motif; other site 649349006942 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 649349006943 Apyrase; Region: Apyrase; cl05556 649349006944 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 649349006945 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 649349006946 metal ion-dependent adhesion site (MIDAS); other site 649349006947 amino acid transporter; Region: 2A0306; TIGR00909 649349006948 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 649349006949 active site 649349006950 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 649349006951 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 649349006952 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 649349006953 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 649349006954 EamA-like transporter family; Region: EamA; pfam00892 649349006955 EamA-like transporter family; Region: EamA; pfam00892 649349006956 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 649349006957 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 649349006958 Predicted amidohydrolase [General function prediction only]; Region: COG0388 649349006959 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 649349006960 putative active site [active] 649349006961 catalytic triad [active] 649349006962 putative dimer interface [polypeptide binding]; other site 649349006963 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 649349006964 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 649349006965 NodB motif; other site 649349006966 active site 649349006967 catalytic site [active] 649349006968 metal binding site [ion binding]; metal-binding site 649349006969 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 649349006970 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 649349006971 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 649349006972 putative active site [active] 649349006973 putative substrate binding site [chemical binding]; other site 649349006974 putative cosubstrate binding site; other site 649349006975 catalytic site [active] 649349006976 GTP-binding protein Der; Reviewed; Region: PRK00093 649349006977 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 649349006978 G1 box; other site 649349006979 GTP/Mg2+ binding site [chemical binding]; other site 649349006980 Switch I region; other site 649349006981 G2 box; other site 649349006982 Switch II region; other site 649349006983 G3 box; other site 649349006984 G4 box; other site 649349006985 G5 box; other site 649349006986 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 649349006987 G1 box; other site 649349006988 GTP/Mg2+ binding site [chemical binding]; other site 649349006989 Switch I region; other site 649349006990 G2 box; other site 649349006991 G3 box; other site 649349006992 Switch II region; other site 649349006993 G4 box; other site 649349006994 G5 box; other site 649349006995 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 649349006996 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 649349006997 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 649349006998 Walker A/P-loop; other site 649349006999 ATP binding site [chemical binding]; other site 649349007000 Q-loop/lid; other site 649349007001 ABC transporter signature motif; other site 649349007002 Walker B; other site 649349007003 D-loop; other site 649349007004 H-loop/switch region; other site 649349007005 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 649349007006 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 649349007007 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 649349007008 Catalytic dyad [active] 649349007009 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 649349007010 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 649349007011 homodimer interface [polypeptide binding]; other site 649349007012 substrate-cofactor binding pocket; other site 649349007013 catalytic residue [active] 649349007014 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 649349007015 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 649349007016 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 649349007017 DHH family; Region: DHH; pfam01368 649349007018 DHHA1 domain; Region: DHHA1; pfam02272 649349007019 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 649349007020 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 649349007021 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 649349007022 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349007023 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349007024 putative active site [active] 649349007025 putative NTP binding site [chemical binding]; other site 649349007026 putative nucleic acid binding site [nucleotide binding]; other site 649349007027 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349007028 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 649349007029 tartrate dehydrogenase; Region: TTC; TIGR02089 649349007030 (R)-citramalate synthase; Provisional; Region: PRK09389 649349007031 Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_CMS; cd07945 649349007032 active site 649349007033 catalytic residues [active] 649349007034 metal binding site [ion binding]; metal-binding site 649349007035 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 649349007036 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 649349007037 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 649349007038 substrate binding site [chemical binding]; other site 649349007039 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 649349007040 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 649349007041 substrate binding site [chemical binding]; other site 649349007042 ligand binding site [chemical binding]; other site 649349007043 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cd02106 649349007044 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 649349007045 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 649349007046 active site 649349007047 catalytic residues [active] 649349007048 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 649349007049 active site 649349007050 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 649349007051 Protein export membrane protein; Region: SecD_SecF; cl14618 649349007052 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349007053 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 649349007054 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349007055 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 649349007056 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 649349007057 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 649349007058 WHG domain; Region: WHG; pfam13305 649349007059 polyphosphate kinase; Provisional; Region: PRK05443 649349007060 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 649349007061 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 649349007062 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 649349007063 putative domain interface [polypeptide binding]; other site 649349007064 putative active site [active] 649349007065 catalytic site [active] 649349007066 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 649349007067 putative domain interface [polypeptide binding]; other site 649349007068 putative active site [active] 649349007069 catalytic site [active] 649349007070 methionine sulfoxide reductase A; Provisional; Region: PRK14054 649349007071 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 649349007072 nucleotide binding site/active site [active] 649349007073 HIT family signature motif; other site 649349007074 catalytic residue [active] 649349007075 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 649349007076 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 649349007077 trigger factor; Region: tig; TIGR00115 649349007078 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 649349007079 Clp protease; Region: CLP_protease; pfam00574 649349007080 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 649349007081 oligomer interface [polypeptide binding]; other site 649349007082 active site residues [active] 649349007083 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 649349007084 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 649349007085 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 649349007086 Walker A motif; other site 649349007087 ATP binding site [chemical binding]; other site 649349007088 Walker B motif; other site 649349007089 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 649349007090 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 649349007091 homodimer interface [polypeptide binding]; other site 649349007092 homotetramer interface [polypeptide binding]; other site 649349007093 active site pocket [active] 649349007094 cleavage site 649349007095 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 649349007096 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 649349007097 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 649349007098 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 649349007099 dihydroorotase; Reviewed; Region: PRK09236 649349007100 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 649349007101 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 649349007102 active site 649349007103 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 649349007104 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 649349007105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 649349007106 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 649349007107 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 649349007108 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 649349007109 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 649349007110 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 649349007111 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 649349007112 primosomal protein N' Region: priA; TIGR00595 649349007113 ATP binding site [chemical binding]; other site 649349007114 putative Mg++ binding site [ion binding]; other site 649349007115 helicase superfamily c-terminal domain; Region: HELICc; smart00490 649349007116 nucleotide binding region [chemical binding]; other site 649349007117 ATP-binding site [chemical binding]; other site 649349007118 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 649349007119 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349007120 catalytic residues [active] 649349007121 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349007122 putative substrate translocation pore; other site 649349007123 POT family; Region: PTR2; cl17359 649349007124 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 649349007125 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 649349007126 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 649349007127 NAD binding site [chemical binding]; other site 649349007128 homodimer interface [polypeptide binding]; other site 649349007129 homotetramer interface [polypeptide binding]; other site 649349007130 active site 649349007131 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 649349007132 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 649349007133 active site 649349007134 HIGH motif; other site 649349007135 KMSKS motif; other site 649349007136 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 649349007137 tRNA binding surface [nucleotide binding]; other site 649349007138 anticodon binding site; other site 649349007139 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 649349007140 dimer interface [polypeptide binding]; other site 649349007141 putative tRNA-binding site [nucleotide binding]; other site 649349007142 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 649349007143 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 649349007144 Walker A/P-loop; other site 649349007145 ATP binding site [chemical binding]; other site 649349007146 Q-loop/lid; other site 649349007147 ABC transporter signature motif; other site 649349007148 Walker B; other site 649349007149 D-loop; other site 649349007150 H-loop/switch region; other site 649349007151 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 649349007152 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 649349007153 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 649349007154 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 649349007155 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 649349007156 Zn binding site [ion binding]; other site 649349007157 Methyltransferase domain; Region: Methyltransf_18; pfam12847 649349007158 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 649349007159 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 649349007160 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 649349007161 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 649349007162 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 649349007163 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 649349007164 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 649349007165 Divergent AAA domain; Region: AAA_4; pfam04326 649349007166 RNA polymerase III subunit RPC82 helix-turn-helix domain; Region: HTH_9; pfam08221 649349007167 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 649349007168 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 649349007169 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349007170 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 649349007171 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 649349007172 S-adenosylmethionine binding site [chemical binding]; other site 649349007173 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 649349007174 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 649349007175 quinone interaction residues [chemical binding]; other site 649349007176 active site 649349007177 catalytic residues [active] 649349007178 FMN binding site [chemical binding]; other site 649349007179 substrate binding site [chemical binding]; other site 649349007180 Predicted membrane protein [Function unknown]; Region: COG2860 649349007181 UPF0126 domain; Region: UPF0126; pfam03458 649349007182 UPF0126 domain; Region: UPF0126; pfam03458 649349007183 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349007184 Transposase; Region: HTH_Tnp_1; pfam01527 649349007185 HTH-like domain; Region: HTH_21; pfam13276 649349007186 Integrase core domain; Region: rve; pfam00665 649349007187 Integrase core domain; Region: rve_3; pfam13683 649349007188 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 649349007189 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349007190 active site 649349007191 phosphorylation site [posttranslational modification] 649349007192 intermolecular recognition site; other site 649349007193 dimerization interface [polypeptide binding]; other site 649349007194 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 649349007195 DNA binding site [nucleotide binding] 649349007196 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349007197 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 649349007198 dimer interface [polypeptide binding]; other site 649349007199 phosphorylation site [posttranslational modification] 649349007200 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349007201 ATP binding site [chemical binding]; other site 649349007202 Mg2+ binding site [ion binding]; other site 649349007203 G-X-G motif; other site 649349007204 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 649349007205 Cysteine-rich domain; Region: CCG; pfam02754 649349007206 Anaphase promoting complex (APC) subunit 2; Region: APC2; cl08488 649349007207 Cysteine-rich domain; Region: CCG; pfam02754 649349007208 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 649349007209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 649349007210 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 649349007211 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 649349007212 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 649349007213 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 649349007214 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349007215 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349007216 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349007217 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 649349007218 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 649349007219 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 649349007220 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 649349007221 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 649349007222 metal binding site [ion binding]; metal-binding site 649349007223 dimer interface [polypeptide binding]; other site 649349007224 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 649349007225 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 649349007226 active site 649349007227 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 649349007228 putative substrate binding site [chemical binding]; other site 649349007229 active site 649349007230 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 649349007231 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 649349007232 putative trimer interface [polypeptide binding]; other site 649349007233 putative CoA binding site [chemical binding]; other site 649349007234 methionine aminotransferase; Validated; Region: PRK09082 649349007235 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 649349007236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349007237 homodimer interface [polypeptide binding]; other site 649349007238 catalytic residue [active] 649349007239 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 649349007240 active site 649349007241 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 649349007242 catalytic tetrad [active] 649349007243 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 649349007244 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 649349007245 substrate binding site [chemical binding]; other site 649349007246 active site 649349007247 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 649349007248 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 649349007249 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349007250 ligand binding site [chemical binding]; other site 649349007251 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 649349007252 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 649349007253 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 649349007254 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 649349007255 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 649349007256 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349007257 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349007258 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 649349007259 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 649349007260 tRNA; other site 649349007261 putative tRNA binding site [nucleotide binding]; other site 649349007262 putative NADP binding site [chemical binding]; other site 649349007263 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 649349007264 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 649349007265 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 649349007266 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 649349007267 Heavy-metal-associated domain; Region: HMA; pfam00403 649349007268 metal-binding site [ion binding] 649349007269 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 649349007270 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 649349007271 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 649349007272 putative active site [active] 649349007273 heme pocket [chemical binding]; other site 649349007274 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 649349007275 dimer interface [polypeptide binding]; other site 649349007276 phosphorylation site [posttranslational modification] 649349007277 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349007278 ATP binding site [chemical binding]; other site 649349007279 G-X-G motif; other site 649349007280 Response regulator receiver domain; Region: Response_reg; pfam00072 649349007281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349007282 active site 649349007283 phosphorylation site [posttranslational modification] 649349007284 intermolecular recognition site; other site 649349007285 dimerization interface [polypeptide binding]; other site 649349007286 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349007287 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 649349007288 ligand binding site [chemical binding]; other site 649349007289 flexible hinge region; other site 649349007290 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 649349007291 non-specific DNA interactions [nucleotide binding]; other site 649349007292 DNA binding site [nucleotide binding] 649349007293 sequence specific DNA binding site [nucleotide binding]; other site 649349007294 putative cAMP binding site [chemical binding]; other site 649349007295 Family description; Region: DsbD_2; pfam13386 649349007296 FixH; Region: FixH; pfam05751 649349007297 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 649349007298 4Fe-4S binding domain; Region: Fer4_5; pfam12801 649349007299 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 649349007300 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 649349007301 Cytochrome c; Region: Cytochrom_C; pfam00034 649349007302 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 649349007303 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 649349007304 Low-spin heme binding site [chemical binding]; other site 649349007305 Putative water exit pathway; other site 649349007306 Binuclear center (active site) [active] 649349007307 Putative proton exit pathway; other site 649349007308 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 649349007309 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 649349007310 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 649349007311 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 649349007312 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 649349007313 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 649349007314 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 649349007315 active site 649349007316 dimer interface [polypeptide binding]; other site 649349007317 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 649349007318 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 649349007319 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 649349007320 homotetramer interface [polypeptide binding]; other site 649349007321 ligand binding site [chemical binding]; other site 649349007322 catalytic site [active] 649349007323 NAD binding site [chemical binding]; other site 649349007324 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 649349007325 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 649349007326 G1 box; other site 649349007327 putative GEF interaction site [polypeptide binding]; other site 649349007328 GTP/Mg2+ binding site [chemical binding]; other site 649349007329 Switch I region; other site 649349007330 G2 box; other site 649349007331 G3 box; other site 649349007332 Switch II region; other site 649349007333 G4 box; other site 649349007334 G5 box; other site 649349007335 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 649349007336 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 649349007337 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 649349007338 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 649349007339 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 649349007340 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 649349007341 alpha subunit interaction interface [polypeptide binding]; other site 649349007342 Walker A motif; other site 649349007343 ATP binding site [chemical binding]; other site 649349007344 Walker B motif; other site 649349007345 inhibitor binding site; inhibition site 649349007346 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 649349007347 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 649349007348 gamma subunit interface [polypeptide binding]; other site 649349007349 LBP interface [polypeptide binding]; other site 649349007350 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 649349007351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349007352 NAD(P) binding site [chemical binding]; other site 649349007353 active site 649349007354 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 649349007355 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 649349007356 substrate-cofactor binding pocket; other site 649349007357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349007358 catalytic residue [active] 649349007359 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 649349007360 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 649349007361 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 649349007362 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 649349007363 generic binding surface II; other site 649349007364 ssDNA binding site; other site 649349007365 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 649349007366 ATP binding site [chemical binding]; other site 649349007367 putative Mg++ binding site [ion binding]; other site 649349007368 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 649349007369 nucleotide binding region [chemical binding]; other site 649349007370 ATP-binding site [chemical binding]; other site 649349007371 Transcriptional regulators [Transcription]; Region: PurR; COG1609 649349007372 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 649349007373 DNA binding site [nucleotide binding] 649349007374 domain linker motif; other site 649349007375 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 649349007376 dimerization interface [polypeptide binding]; other site 649349007377 ligand binding site [chemical binding]; other site 649349007378 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349007379 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349007380 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349007381 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 649349007382 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349007383 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349007384 SusD family; Region: SusD; pfam07980 649349007385 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 649349007386 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 649349007387 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 649349007388 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 649349007389 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 649349007390 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 649349007391 NADH dehydrogenase subunit 4; Provisional; Region: ND4; MTH00150 649349007392 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 649349007393 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 649349007394 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 649349007395 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 649349007396 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 649349007397 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 649349007398 active site 649349007399 catalytic site [active] 649349007400 substrate binding site [chemical binding]; other site 649349007401 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349007402 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349007403 ATP binding site [chemical binding]; other site 649349007404 Mg2+ binding site [ion binding]; other site 649349007405 G-X-G motif; other site 649349007406 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 649349007407 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 649349007408 dimer interface [polypeptide binding]; other site 649349007409 active site 649349007410 CoA binding pocket [chemical binding]; other site 649349007411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349007412 NAD(P) binding site [chemical binding]; other site 649349007413 active site 649349007414 Trehalase; Region: Trehalase; cl17346 649349007415 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 649349007416 catalytic core [active] 649349007417 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 649349007418 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 649349007419 NADP binding site [chemical binding]; other site 649349007420 homodimer interface [polypeptide binding]; other site 649349007421 substrate binding site [chemical binding]; other site 649349007422 active site 649349007423 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 649349007424 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 649349007425 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 649349007426 NAD(P) binding site [chemical binding]; other site 649349007427 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 649349007428 [2Fe-2S] cluster binding site [ion binding]; other site 649349007429 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 649349007430 metal binding site 2 [ion binding]; metal-binding site 649349007431 putative DNA binding helix; other site 649349007432 metal binding site 1 [ion binding]; metal-binding site 649349007433 dimer interface [polypeptide binding]; other site 649349007434 structural Zn2+ binding site [ion binding]; other site 649349007435 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 649349007436 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349007437 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349007438 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 649349007439 N-terminal plug; other site 649349007440 ligand-binding site [chemical binding]; other site 649349007441 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 649349007442 Domain of unknown function DUF20; Region: UPF0118; pfam01594 649349007443 acyl-CoA esterase; Provisional; Region: PRK10673 649349007444 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 649349007445 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349007446 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349007447 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349007448 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349007449 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 649349007450 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349007451 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 649349007452 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 649349007453 nucleotide binding site [chemical binding]; other site 649349007454 Uncharacterized conserved protein [Function unknown]; Region: COG3538 649349007455 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 649349007456 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349007457 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349007458 putative active site [active] 649349007459 putative NTP binding site [chemical binding]; other site 649349007460 putative nucleic acid binding site [nucleotide binding]; other site 649349007461 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349007462 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349007463 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349007464 putative active site [active] 649349007465 putative NTP binding site [chemical binding]; other site 649349007466 putative nucleic acid binding site [nucleotide binding]; other site 649349007467 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349007468 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 649349007469 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 649349007470 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 649349007471 putative acyl-acceptor binding pocket; other site 649349007472 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 649349007473 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 649349007474 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 649349007475 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 649349007476 dimerization interface [polypeptide binding]; other site 649349007477 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 649349007478 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 649349007479 dimer interface [polypeptide binding]; other site 649349007480 active site 649349007481 heme binding site [chemical binding]; other site 649349007482 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 649349007483 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 649349007484 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 649349007485 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 649349007486 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 649349007487 Protein export membrane protein; Region: SecD_SecF; pfam02355 649349007488 Uncharacterized conserved protein [Function unknown]; Region: COG1739 649349007489 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 649349007490 rod shape-determining protein MreB; Provisional; Region: PRK13927 649349007491 MreB and similar proteins; Region: MreB_like; cd10225 649349007492 nucleotide binding site [chemical binding]; other site 649349007493 Mg binding site [ion binding]; other site 649349007494 putative protofilament interaction site [polypeptide binding]; other site 649349007495 RodZ interaction site [polypeptide binding]; other site 649349007496 rod shape-determining protein MreC; Provisional; Region: PRK13922 649349007497 rod shape-determining protein MreC; Region: MreC; pfam04085 649349007498 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349007499 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349007500 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 649349007501 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown AAK14816-like; Region: LPLAT_AAK14816-like; cd07992 649349007502 putative acyl-acceptor binding pocket; other site 649349007503 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 649349007504 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 649349007505 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 649349007506 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 649349007507 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 649349007508 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 649349007509 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 649349007510 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349007511 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 649349007512 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 649349007513 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 649349007514 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 649349007515 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 649349007516 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 649349007517 substrate binding site [chemical binding]; other site 649349007518 oxyanion hole (OAH) forming residues; other site 649349007519 trimer interface [polypeptide binding]; other site 649349007520 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 649349007521 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 649349007522 dimer interface [polypeptide binding]; other site 649349007523 active site 649349007524 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 649349007525 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 649349007526 tetramer interface [polypeptide binding]; other site 649349007527 threonine dehydratase; Validated; Region: PRK08639 649349007528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349007529 catalytic residue [active] 649349007530 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 649349007531 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349007532 GLPGLI family protein; Region: GLPGLI; TIGR01200 649349007533 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 649349007534 dimer interface [polypeptide binding]; other site 649349007535 phosphorylation site [posttranslational modification] 649349007536 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 649349007537 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349007538 ATP binding site [chemical binding]; other site 649349007539 Mg2+ binding site [ion binding]; other site 649349007540 G-X-G motif; other site 649349007541 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 649349007542 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349007543 active site 649349007544 phosphorylation site [posttranslational modification] 649349007545 intermolecular recognition site; other site 649349007546 dimerization interface [polypeptide binding]; other site 649349007547 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 649349007548 DNA binding site [nucleotide binding] 649349007549 Anti-sigma-K factor rskA; Region: RskA; pfam10099 649349007550 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349007551 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 649349007552 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349007553 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 649349007554 DNA binding residues [nucleotide binding] 649349007555 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 649349007556 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 649349007557 catalytic motif [active] 649349007558 Zn binding site [ion binding]; other site 649349007559 RibD C-terminal domain; Region: RibD_C; pfam01872 649349007560 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 649349007561 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 649349007562 purine monophosphate binding site [chemical binding]; other site 649349007563 dimer interface [polypeptide binding]; other site 649349007564 putative catalytic residues [active] 649349007565 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 649349007566 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 649349007567 amino acid transporter; Region: 2A0306; TIGR00909 649349007568 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 649349007569 Cupin domain; Region: Cupin_2; cl17218 649349007570 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 649349007571 GTPase Era; Reviewed; Region: era; PRK00089 649349007572 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 649349007573 G1 box; other site 649349007574 GTP/Mg2+ binding site [chemical binding]; other site 649349007575 Switch I region; other site 649349007576 G2 box; other site 649349007577 Switch II region; other site 649349007578 G3 box; other site 649349007579 G4 box; other site 649349007580 G5 box; other site 649349007581 KH domain; Region: KH_2; pfam07650 649349007582 Sulfatase; Region: Sulfatase; cl17466 649349007583 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 649349007584 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 649349007585 ATP binding site [chemical binding]; other site 649349007586 Mg++ binding site [ion binding]; other site 649349007587 motif III; other site 649349007588 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 649349007589 nucleotide binding region [chemical binding]; other site 649349007590 ATP-binding site [chemical binding]; other site 649349007591 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 649349007592 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 649349007593 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 649349007594 Walker A/P-loop; other site 649349007595 ATP binding site [chemical binding]; other site 649349007596 Q-loop/lid; other site 649349007597 ABC transporter signature motif; other site 649349007598 Walker B; other site 649349007599 D-loop; other site 649349007600 H-loop/switch region; other site 649349007601 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 649349007602 metal binding site [ion binding]; metal-binding site 649349007603 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 649349007604 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 649349007605 catalytic residue [active] 649349007606 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 649349007607 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 649349007608 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 649349007609 substrate binding site [chemical binding]; other site 649349007610 oxyanion hole (OAH) forming residues; other site 649349007611 trimer interface [polypeptide binding]; other site 649349007612 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 649349007613 23S rRNA interface [nucleotide binding]; other site 649349007614 L3 interface [polypeptide binding]; other site 649349007615 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 649349007616 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 649349007617 rRNA interaction site [nucleotide binding]; other site 649349007618 S8 interaction site; other site 649349007619 putative laminin-1 binding site; other site 649349007620 elongation factor Ts; Provisional; Region: tsf; PRK09377 649349007621 UBA/TS-N domain; Region: UBA; pfam00627 649349007622 Elongation factor TS; Region: EF_TS; pfam00889 649349007623 Elongation factor TS; Region: EF_TS; pfam00889 649349007624 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 649349007625 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 649349007626 ligand binding site [chemical binding]; other site 649349007627 flexible hinge region; other site 649349007628 DoxX; Region: DoxX; pfam07681 649349007629 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 649349007630 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 649349007631 Walker A motif; other site 649349007632 ATP binding site [chemical binding]; other site 649349007633 Walker B motif; other site 649349007634 arginine finger; other site 649349007635 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 649349007636 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 649349007637 LytB protein; Region: LYTB; cl00507 649349007638 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 649349007639 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 649349007640 Glycogen synthase; Region: Glycogen_syn; pfam05693 649349007641 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 649349007642 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 649349007643 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 649349007644 catalytic residue [active] 649349007645 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 649349007646 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 649349007647 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 649349007648 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349007649 active site 649349007650 phosphorylation site [posttranslational modification] 649349007651 intermolecular recognition site; other site 649349007652 dimerization interface [polypeptide binding]; other site 649349007653 LytTr DNA-binding domain; Region: LytTR; pfam04397 649349007654 Histidine kinase; Region: His_kinase; pfam06580 649349007655 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349007656 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349007657 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349007658 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 649349007659 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 649349007660 putative active site [active] 649349007661 metal binding site [ion binding]; metal-binding site 649349007662 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 649349007663 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 649349007664 active site 649349007665 metal binding site [ion binding]; metal-binding site 649349007666 nudix motif; other site 649349007667 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 649349007668 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 649349007669 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 649349007670 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 649349007671 active site 649349007672 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 649349007673 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 649349007674 Nucleoside recognition; Region: Gate; pfam07670 649349007675 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 649349007676 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 649349007677 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 649349007678 active site 649349007679 HIGH motif; other site 649349007680 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 649349007681 KMSKS motif; other site 649349007682 This DALR domain is found in cysteinyl-tRNA-synthetases; Region: DALR_2; smart00840 649349007683 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 649349007684 active site 649349007685 catalytic triad [active] 649349007686 oxyanion hole [active] 649349007687 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 649349007688 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 649349007689 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 649349007690 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 649349007691 dimer interface [polypeptide binding]; other site 649349007692 tetramer interface [polypeptide binding]; other site 649349007693 PYR/PP interface [polypeptide binding]; other site 649349007694 TPP binding site [chemical binding]; other site 649349007695 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 649349007696 TPP-binding site; other site 649349007697 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 649349007698 GAF domain; Region: GAF_2; pfam13185 649349007699 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 649349007700 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 649349007701 homodimer interface [polypeptide binding]; other site 649349007702 metal binding site [ion binding]; metal-binding site 649349007703 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 649349007704 homodimer interface [polypeptide binding]; other site 649349007705 active site 649349007706 putative chemical substrate binding site [chemical binding]; other site 649349007707 metal binding site [ion binding]; metal-binding site 649349007708 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 649349007709 Alpha-L-fucosidase; Region: Alpha_L_fucos; pfam01120 649349007710 multidrug efflux protein; Reviewed; Region: PRK01766 649349007711 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 649349007712 cation binding site [ion binding]; other site 649349007713 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 649349007714 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 649349007715 putative active site [active] 649349007716 putative metal binding site [ion binding]; other site 649349007717 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 649349007718 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 649349007719 dimer interface [polypeptide binding]; other site 649349007720 catalytic triad [active] 649349007721 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 649349007722 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 649349007723 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 649349007724 Phosphoesterase family; Region: Phosphoesterase; pfam04185 649349007725 Phosphoesterase family; Region: Phosphoesterase; pfam04185 649349007726 Domain of unknown function (DUF756); Region: DUF756; pfam05506 649349007727 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 649349007728 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 649349007729 NAD(P) binding site [chemical binding]; other site 649349007730 catalytic residues [active] 649349007731 Predicted permeases [General function prediction only]; Region: COG0795 649349007732 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 649349007733 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 649349007734 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 649349007735 active site 649349007736 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 649349007737 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 649349007738 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 649349007739 active site 649349007740 multimer interface [polypeptide binding]; other site 649349007741 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 649349007742 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349007743 catalytic residues [active] 649349007744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 649349007745 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 649349007746 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 649349007747 NADP binding site [chemical binding]; other site 649349007748 active site 649349007749 putative substrate binding site [chemical binding]; other site 649349007750 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 649349007751 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 649349007752 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 649349007753 Zn2+ binding site [ion binding]; other site 649349007754 Mg2+ binding site [ion binding]; other site 649349007755 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 649349007756 PspC domain; Region: PspC; pfam04024 649349007757 PspC domain; Region: PspC; pfam04024 649349007758 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 649349007759 Predicted transcriptional regulators [Transcription]; Region: COG1695 649349007760 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 649349007761 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349007762 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349007763 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349007764 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349007765 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 649349007766 active site 649349007767 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 649349007768 ribosomal protein L33; Region: rpl33; CHL00104 649349007769 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 649349007770 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 649349007771 active site 649349007772 Glyco_18 domain; Region: Glyco_18; smart00636 649349007773 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 649349007774 active site 649349007775 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 649349007776 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 649349007777 Found in ATP-dependent protease La (LON); Region: LON; smart00464 649349007778 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 649349007779 Walker A motif; other site 649349007780 ATP binding site [chemical binding]; other site 649349007781 Walker B motif; other site 649349007782 arginine finger; other site 649349007783 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 649349007784 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 649349007785 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 649349007786 substrate binding site [chemical binding]; other site 649349007787 glutamase interaction surface [polypeptide binding]; other site 649349007788 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 649349007789 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 649349007790 catalytic residues [active] 649349007791 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 649349007792 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 649349007793 putative active site [active] 649349007794 oxyanion strand; other site 649349007795 catalytic triad [active] 649349007796 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 649349007797 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 649349007798 substrate binding pocket [chemical binding]; other site 649349007799 chain length determination region; other site 649349007800 substrate-Mg2+ binding site; other site 649349007801 catalytic residues [active] 649349007802 aspartate-rich region 1; other site 649349007803 active site lid residues [active] 649349007804 aspartate-rich region 2; other site 649349007805 argininosuccinate lyase; Provisional; Region: PRK00855 649349007806 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 649349007807 active sites [active] 649349007808 tetramer interface [polypeptide binding]; other site 649349007809 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 649349007810 binding surface 649349007811 TPR motif; other site 649349007812 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 649349007813 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 649349007814 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349007815 ligand binding site [chemical binding]; other site 649349007816 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 649349007817 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 649349007818 minor groove reading motif; other site 649349007819 helix-hairpin-helix signature motif; other site 649349007820 substrate binding pocket [chemical binding]; other site 649349007821 active site 649349007822 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 649349007823 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 649349007824 DNA binding and oxoG recognition site [nucleotide binding] 649349007825 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 649349007826 IHF - DNA interface [nucleotide binding]; other site 649349007827 IHF dimer interface [polypeptide binding]; other site 649349007828 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 649349007829 TPR motif; other site 649349007830 Tetratricopeptide repeat; Region: TPR_16; pfam13432 649349007831 binding surface 649349007832 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 649349007833 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 649349007834 homodimer interface [polypeptide binding]; other site 649349007835 oligonucleotide binding site [chemical binding]; other site 649349007836 C-N hydrolase family amidase; Provisional; Region: PRK10438 649349007837 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 649349007838 active site 649349007839 catalytic triad [active] 649349007840 dimer interface [polypeptide binding]; other site 649349007841 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 649349007842 active site 649349007843 catalytic residues [active] 649349007844 metal binding site [ion binding]; metal-binding site 649349007845 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 649349007846 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 649349007847 NADP-binding site; other site 649349007848 homotetramer interface [polypeptide binding]; other site 649349007849 substrate binding site [chemical binding]; other site 649349007850 homodimer interface [polypeptide binding]; other site 649349007851 active site 649349007852 Sporulation related domain; Region: SPOR; pfam05036 649349007853 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 649349007854 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 649349007855 GDP-binding site [chemical binding]; other site 649349007856 ACT binding site; other site 649349007857 IMP binding site; other site 649349007858 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 649349007859 metal binding site 2 [ion binding]; metal-binding site 649349007860 putative DNA binding helix; other site 649349007861 metal binding site 1 [ion binding]; metal-binding site 649349007862 dimer interface [polypeptide binding]; other site 649349007863 structural Zn2+ binding site [ion binding]; other site 649349007864 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 649349007865 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 649349007866 Zn2+ binding site [ion binding]; other site 649349007867 Mg2+ binding site [ion binding]; other site 649349007868 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 649349007869 synthetase active site [active] 649349007870 NTP binding site [chemical binding]; other site 649349007871 metal binding site [ion binding]; metal-binding site 649349007872 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 649349007873 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 649349007874 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 649349007875 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 649349007876 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 649349007877 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 649349007878 Walker A/P-loop; other site 649349007879 ATP binding site [chemical binding]; other site 649349007880 Q-loop/lid; other site 649349007881 ABC transporter signature motif; other site 649349007882 Walker B; other site 649349007883 D-loop; other site 649349007884 H-loop/switch region; other site 649349007885 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 649349007886 metal binding site 2 [ion binding]; metal-binding site 649349007887 putative DNA binding helix; other site 649349007888 metal binding site 1 [ion binding]; metal-binding site 649349007889 dimer interface [polypeptide binding]; other site 649349007890 structural Zn2+ binding site [ion binding]; other site 649349007891 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 649349007892 G1 box; other site 649349007893 GTP/Mg2+ binding site [chemical binding]; other site 649349007894 Switch I region; other site 649349007895 G2 box; other site 649349007896 G3 box; other site 649349007897 Switch II region; other site 649349007898 G4 box; other site 649349007899 G5 box; other site 649349007900 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 649349007901 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 649349007902 nucleotide binding site [chemical binding]; other site 649349007903 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 649349007904 nucleoside/Zn binding site; other site 649349007905 dimer interface [polypeptide binding]; other site 649349007906 catalytic motif [active] 649349007907 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 649349007908 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 649349007909 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 649349007910 Transcriptional regulators [Transcription]; Region: PurR; COG1609 649349007911 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 649349007912 DNA binding site [nucleotide binding] 649349007913 domain linker motif; other site 649349007914 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 649349007915 dimerization interface [polypeptide binding]; other site 649349007916 ligand binding site [chemical binding]; other site 649349007917 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 649349007918 nucleotide binding site [chemical binding]; other site 649349007919 xylose isomerase; Provisional; Region: PRK05474 649349007920 xylose isomerase; Region: xylose_isom_A; TIGR02630 649349007921 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 649349007922 putative transporter; Provisional; Region: PRK10484 649349007923 Na binding site [ion binding]; other site 649349007924 substrate binding site [chemical binding]; other site 649349007925 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 649349007926 Two component regulator propeller; Region: Reg_prop; pfam07494 649349007927 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 649349007928 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349007929 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 649349007930 dimer interface [polypeptide binding]; other site 649349007931 phosphorylation site [posttranslational modification] 649349007932 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349007933 ATP binding site [chemical binding]; other site 649349007934 Mg2+ binding site [ion binding]; other site 649349007935 G-X-G motif; other site 649349007936 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 649349007937 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349007938 active site 649349007939 phosphorylation site [posttranslational modification] 649349007940 intermolecular recognition site; other site 649349007941 dimerization interface [polypeptide binding]; other site 649349007942 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 649349007943 PA14 domain; Region: PA14; cl08459 649349007944 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 649349007945 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 649349007946 putative active site [active] 649349007947 putative catalytic site [active] 649349007948 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349007949 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349007950 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349007951 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349007952 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 649349007953 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349007954 SusD family; Region: SusD; pfam07980 649349007955 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 649349007956 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 649349007957 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 649349007958 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 649349007959 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 649349007960 inhibitor-cofactor binding pocket; inhibition site 649349007961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349007962 catalytic residue [active] 649349007963 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 649349007964 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349007965 catalytic residues [active] 649349007966 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 649349007967 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349007968 catalytic residues [active] 649349007969 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 649349007970 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 649349007971 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 649349007972 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 649349007973 Chromate transporter; Region: Chromate_transp; cl17781 649349007974 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 649349007975 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349007976 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 649349007977 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 649349007978 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 649349007979 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349007980 active site 649349007981 phosphorylation site [posttranslational modification] 649349007982 intermolecular recognition site; other site 649349007983 dimerization interface [polypeptide binding]; other site 649349007984 LytTr DNA-binding domain; Region: LytTR; smart00850 649349007985 Histidine kinase; Region: His_kinase; pfam06580 649349007986 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 649349007987 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 649349007988 adenylosuccinate lyase; Provisional; Region: PRK09285 649349007989 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 649349007990 tetramer interface [polypeptide binding]; other site 649349007991 active site 649349007992 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 649349007993 amphipathic channel; other site 649349007994 Asn-Pro-Ala signature motifs; other site 649349007995 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 649349007996 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 649349007997 acyl-activating enzyme (AAE) consensus motif; other site 649349007998 AMP binding site [chemical binding]; other site 649349007999 active site 649349008000 CoA binding site [chemical binding]; other site 649349008001 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 649349008002 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 649349008003 putative acyl-acceptor binding pocket; other site 649349008004 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 649349008005 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 649349008006 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 649349008007 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 649349008008 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 649349008009 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 649349008010 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 649349008011 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 649349008012 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 649349008013 active site 649349008014 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 649349008015 active site 649349008016 catalytic residues [active] 649349008017 metal binding site [ion binding]; metal-binding site 649349008018 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 649349008019 substrate binding site [chemical binding]; other site 649349008020 oxyanion hole (OAH) forming residues; other site 649349008021 trimer interface [polypeptide binding]; other site 649349008022 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 649349008023 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 649349008024 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 649349008025 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 649349008026 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 649349008027 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 649349008028 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 649349008029 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 649349008030 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 649349008031 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 649349008032 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 649349008033 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 649349008034 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349008035 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 649349008036 ligand binding site [chemical binding]; other site 649349008037 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 649349008038 binding surface 649349008039 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 649349008040 TPR motif; other site 649349008041 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 649349008042 TPR motif; other site 649349008043 binding surface 649349008044 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 649349008045 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 649349008046 Peptidase family M23; Region: Peptidase_M23; pfam01551 649349008047 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 649349008048 oligomerization interface [polypeptide binding]; other site 649349008049 active site 649349008050 metal binding site [ion binding]; metal-binding site 649349008051 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 649349008052 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 649349008053 Competence protein; Region: Competence; pfam03772 649349008054 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 649349008055 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 649349008056 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 649349008057 active site 649349008058 DNA binding site [nucleotide binding] 649349008059 Int/Topo IB signature motif; other site 649349008060 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 649349008061 TANFOR domain; Region: T_forsyth_147; TIGR02542 649349008062 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 649349008063 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 649349008064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349008065 active site 649349008066 phosphorylation site [posttranslational modification] 649349008067 intermolecular recognition site; other site 649349008068 dimerization interface [polypeptide binding]; other site 649349008069 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 649349008070 DNA binding residues [nucleotide binding] 649349008071 dimerization interface [polypeptide binding]; other site 649349008072 Tetratricopeptide repeat; Region: TPR_12; pfam13424 649349008073 Tetratricopeptide repeat; Region: TPR_12; pfam13424 649349008074 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 649349008075 binding surface 649349008076 TPR motif; other site 649349008077 Tetratricopeptide repeat; Region: TPR_12; pfam13424 649349008078 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 649349008079 Histidine kinase; Region: HisKA_3; pfam07730 649349008080 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349008081 ATP binding site [chemical binding]; other site 649349008082 Mg2+ binding site [ion binding]; other site 649349008083 G-X-G motif; other site 649349008084 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 649349008085 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 649349008086 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 649349008087 putative active site [active] 649349008088 putative metal binding site [ion binding]; other site 649349008089 Response regulator receiver domain; Region: Response_reg; pfam00072 649349008090 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349008091 active site 649349008092 phosphorylation site [posttranslational modification] 649349008093 intermolecular recognition site; other site 649349008094 dimerization interface [polypeptide binding]; other site 649349008095 putative hydrolase; Provisional; Region: PRK02113 649349008096 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 649349008097 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 649349008098 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 649349008099 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 649349008100 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 649349008101 tetramer interface [polypeptide binding]; other site 649349008102 TPP-binding site [chemical binding]; other site 649349008103 heterodimer interface [polypeptide binding]; other site 649349008104 phosphorylation loop region [posttranslational modification] 649349008105 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 649349008106 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 649349008107 PYR/PP interface [polypeptide binding]; other site 649349008108 dimer interface [polypeptide binding]; other site 649349008109 TPP binding site [chemical binding]; other site 649349008110 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 649349008111 hypothetical protein; Provisional; Region: PRK08201 649349008112 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 649349008113 metal binding site [ion binding]; metal-binding site 649349008114 putative dimer interface [polypeptide binding]; other site 649349008115 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 649349008116 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 649349008117 putative active site [active] 649349008118 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 649349008119 metal ion-dependent adhesion site (MIDAS); other site 649349008120 MoxR-like ATPases [General function prediction only]; Region: COG0714 649349008121 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 649349008122 Walker A motif; other site 649349008123 ATP binding site [chemical binding]; other site 649349008124 Walker B motif; other site 649349008125 arginine finger; other site 649349008126 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 649349008127 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 649349008128 S-adenosylmethionine binding site [chemical binding]; other site 649349008129 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 649349008130 Predicted flavoprotein [General function prediction only]; Region: COG0431 649349008131 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 649349008132 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 649349008133 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 649349008134 active site 649349008135 intersubunit interface [polypeptide binding]; other site 649349008136 zinc binding site [ion binding]; other site 649349008137 Na+ binding site [ion binding]; other site 649349008138 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349008139 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349008140 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349008141 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349008142 starch binding outer membrane protein SusD; Region: SusD; cd08977 649349008143 SusD family; Region: SusD; pfam07980 649349008144 Family description; Region: VCBS; pfam13517 649349008145 Family description; Region: VCBS; pfam13517 649349008146 amino acid transporter; Region: 2A0306; TIGR00909 649349008147 CAAX protease self-immunity; Region: Abi; pfam02517 649349008148 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 649349008149 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 649349008150 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 649349008151 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 649349008152 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 649349008153 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 649349008154 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 649349008155 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 649349008156 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 649349008157 Phosphoglycerate kinase; Region: PGK; pfam00162 649349008158 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 649349008159 substrate binding site [chemical binding]; other site 649349008160 hinge regions; other site 649349008161 ADP binding site [chemical binding]; other site 649349008162 catalytic site [active] 649349008163 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 649349008164 Oxygen tolerance; Region: BatD; pfam13584 649349008165 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 649349008166 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 649349008167 Tetramer interface [polypeptide binding]; other site 649349008168 active site 649349008169 FMN-binding site [chemical binding]; other site 649349008170 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 649349008171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349008172 active site 649349008173 phosphorylation site [posttranslational modification] 649349008174 intermolecular recognition site; other site 649349008175 dimerization interface [polypeptide binding]; other site 649349008176 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 649349008177 DNA binding site [nucleotide binding] 649349008178 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 649349008179 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 649349008180 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 649349008181 active site 649349008182 catalytic triad [active] 649349008183 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 649349008184 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 649349008185 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 649349008186 putative trimer interface [polypeptide binding]; other site 649349008187 putative CoA binding site [chemical binding]; other site 649349008188 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 649349008189 DNA polymerase III subunit delta'; Validated; Region: PRK08485 649349008190 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 649349008191 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349008192 Walker A/P-loop; other site 649349008193 ATP binding site [chemical binding]; other site 649349008194 Q-loop/lid; other site 649349008195 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 649349008196 ABC transporter; Region: ABC_tran_2; pfam12848 649349008197 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 649349008198 prolyl-tRNA synthetase; Provisional; Region: PRK08661 649349008199 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 649349008200 dimer interface [polypeptide binding]; other site 649349008201 motif 1; other site 649349008202 active site 649349008203 motif 2; other site 649349008204 motif 3; other site 649349008205 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 649349008206 anticodon binding site; other site 649349008207 zinc-binding site [ion binding]; other site 649349008208 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 649349008209 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 649349008210 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 649349008211 FAD binding site [chemical binding]; other site 649349008212 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 649349008213 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 649349008214 MutS domain III; Region: MutS_III; pfam05192 649349008215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349008216 Walker A/P-loop; other site 649349008217 ATP binding site [chemical binding]; other site 649349008218 Q-loop/lid; other site 649349008219 ABC transporter signature motif; other site 649349008220 Walker B; other site 649349008221 D-loop; other site 649349008222 H-loop/switch region; other site 649349008223 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 649349008224 Smr domain; Region: Smr; pfam01713 649349008225 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 649349008226 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 649349008227 Protein of unknown function DUF58; Region: DUF58; pfam01882 649349008228 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 649349008229 metal ion-dependent adhesion site (MIDAS); other site 649349008230 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 649349008231 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 649349008232 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 649349008233 GH3 auxin-responsive promoter; Region: GH3; pfam03321 649349008234 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349008235 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 649349008236 N-terminal plug; other site 649349008237 ligand-binding site [chemical binding]; other site 649349008238 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 649349008239 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 649349008240 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 649349008241 active site 649349008242 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 649349008243 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 649349008244 phosphoribosylaminoimidazole synthetase; Region: purM; TIGR00878 649349008245 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 649349008246 dimerization interface [polypeptide binding]; other site 649349008247 ATP binding site [chemical binding]; other site 649349008248 putative mechanosensitive channel protein; Provisional; Region: PRK10929 649349008249 Response regulator receiver domain; Region: Response_reg; pfam00072 649349008250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349008251 active site 649349008252 phosphorylation site [posttranslational modification] 649349008253 intermolecular recognition site; other site 649349008254 dimerization interface [polypeptide binding]; other site 649349008255 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 649349008256 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 649349008257 Walker A motif; other site 649349008258 ATP binding site [chemical binding]; other site 649349008259 Walker B motif; other site 649349008260 arginine finger; other site 649349008261 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 649349008262 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 649349008263 nucleotide binding pocket [chemical binding]; other site 649349008264 K-X-D-G motif; other site 649349008265 catalytic site [active] 649349008266 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 649349008267 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 649349008268 Helix-hairpin-helix motif; Region: HHH; pfam00633 649349008269 helix-hairpin-helix signature motif; other site 649349008270 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 649349008271 Dimer interface [polypeptide binding]; other site 649349008272 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 649349008273 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 649349008274 intersubunit interface [polypeptide binding]; other site 649349008275 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 649349008276 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 649349008277 ABC-ATPase subunit interface; other site 649349008278 dimer interface [polypeptide binding]; other site 649349008279 putative PBP binding regions; other site 649349008280 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 649349008281 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 649349008282 Walker A/P-loop; other site 649349008283 ATP binding site [chemical binding]; other site 649349008284 Q-loop/lid; other site 649349008285 ABC transporter signature motif; other site 649349008286 Walker B; other site 649349008287 D-loop; other site 649349008288 H-loop/switch region; other site 649349008289 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 649349008290 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 649349008291 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 649349008292 Protein of unknown function, DUF399; Region: DUF399; pfam04187 649349008293 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 649349008294 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 649349008295 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 649349008296 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 649349008297 FtsX-like permease family; Region: FtsX; pfam02687 649349008298 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 649349008299 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 649349008300 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 649349008301 active site 649349008302 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 649349008303 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 649349008304 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 649349008305 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 649349008306 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 649349008307 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 649349008308 putative active site [active] 649349008309 catalytic triad [active] 649349008310 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 649349008311 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 649349008312 ATP-binding site [chemical binding]; other site 649349008313 Sugar specificity; other site 649349008314 Pyrimidine base specificity; other site 649349008315 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349008316 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 649349008317 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 649349008318 protein binding site [polypeptide binding]; other site 649349008319 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 649349008320 Active site serine [active] 649349008321 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 649349008322 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 649349008323 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 649349008324 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 649349008325 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 649349008326 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 649349008327 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 649349008328 classical (c) SDRs; Region: SDR_c; cd05233 649349008329 NAD(P) binding site [chemical binding]; other site 649349008330 active site 649349008331 Permease; Region: Permease; pfam02405 649349008332 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 649349008333 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 649349008334 Walker A/P-loop; other site 649349008335 ATP binding site [chemical binding]; other site 649349008336 Q-loop/lid; other site 649349008337 ABC transporter signature motif; other site 649349008338 Walker B; other site 649349008339 D-loop; other site 649349008340 H-loop/switch region; other site 649349008341 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 649349008342 hypothetical protein; Reviewed; Region: PRK12497 649349008343 Lipoate-protein ligase B [Coenzyme metabolism]; Region: LipB; COG0321 649349008344 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 649349008345 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 649349008346 active site 649349008347 META domain; Region: META; pfam03724 649349008348 SurA N-terminal domain; Region: SurA_N_3; cl07813 649349008349 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 649349008350 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 649349008351 Protein of unknown function (DUF419); Region: DUF419; pfam04237 649349008352 fructokinase; Reviewed; Region: PRK09557 649349008353 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 649349008354 nucleotide binding site [chemical binding]; other site 649349008355 Acetokinase family; Region: Acetate_kinase; cl17229 649349008356 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 649349008357 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 649349008358 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 649349008359 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 649349008360 EamA-like transporter family; Region: EamA; pfam00892 649349008361 EamA-like transporter family; Region: EamA; pfam00892 649349008362 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 649349008363 putative nucleotide binding site [chemical binding]; other site 649349008364 uridine monophosphate binding site [chemical binding]; other site 649349008365 homohexameric interface [polypeptide binding]; other site 649349008366 ribosome recycling factor; Reviewed; Region: frr; PRK00083 649349008367 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 649349008368 hinge region; other site 649349008369 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349008370 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 649349008371 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349008372 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 649349008373 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 649349008374 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 649349008375 ApbE family; Region: ApbE; pfam02424 649349008376 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 649349008377 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 649349008378 iron-sulfur cluster [ion binding]; other site 649349008379 [2Fe-2S] cluster binding site [ion binding]; other site 649349008380 putative glycosyl transferase; Provisional; Region: PRK10063 649349008381 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 649349008382 metal-binding site 649349008383 Predicted transcriptional regulators [Transcription]; Region: COG1733 649349008384 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 649349008385 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 649349008386 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 649349008387 nucleophile elbow; other site 649349008388 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 649349008389 CoenzymeA binding site [chemical binding]; other site 649349008390 subunit interaction site [polypeptide binding]; other site 649349008391 PHB binding site; other site 649349008392 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 649349008393 catalytic core [active] 649349008394 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 649349008395 Histidine kinase; Region: His_kinase; pfam06580 649349008396 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 649349008397 Mg2+ binding site [ion binding]; other site 649349008398 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 649349008399 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349008400 active site 649349008401 phosphorylation site [posttranslational modification] 649349008402 intermolecular recognition site; other site 649349008403 dimerization interface [polypeptide binding]; other site 649349008404 LytTr DNA-binding domain; Region: LytTR; smart00850 649349008405 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 649349008406 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 649349008407 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 649349008408 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 649349008409 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 649349008410 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 649349008411 protein binding site [polypeptide binding]; other site 649349008412 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 649349008413 Domain interface; other site 649349008414 Peptide binding site; other site 649349008415 Active site tetrad [active] 649349008416 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349008417 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349008418 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 649349008419 FAD binding domain; Region: FAD_binding_4; pfam01565 649349008420 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 649349008421 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 649349008422 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 649349008423 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 649349008424 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 649349008425 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 649349008426 putative active site [active] 649349008427 putative NTP binding site [chemical binding]; other site 649349008428 putative nucleic acid binding site [nucleotide binding]; other site 649349008429 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 649349008430 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 649349008431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 649349008432 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 649349008433 MutS domain III; Region: MutS_III; cl17822 649349008434 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349008435 Walker A/P-loop; other site 649349008436 ATP binding site [chemical binding]; other site 649349008437 Q-loop/lid; other site 649349008438 ABC transporter signature motif; other site 649349008439 Walker B; other site 649349008440 D-loop; other site 649349008441 H-loop/switch region; other site 649349008442 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 649349008443 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349008444 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 649349008445 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349008446 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 649349008447 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 649349008448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349008449 active site 649349008450 phosphorylation site [posttranslational modification] 649349008451 intermolecular recognition site; other site 649349008452 dimerization interface [polypeptide binding]; other site 649349008453 LytTr DNA-binding domain; Region: LytTR; smart00850 649349008454 Histidine kinase; Region: His_kinase; pfam06580 649349008455 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 649349008456 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 649349008457 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 649349008458 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 649349008459 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 649349008460 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 649349008461 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 649349008462 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349008463 putative catalytic residue [active] 649349008464 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 649349008465 putative ligand binding site [chemical binding]; other site 649349008466 putative catalytic site [active] 649349008467 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 649349008468 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 649349008469 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 649349008470 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349008471 Walker A/P-loop; other site 649349008472 ATP binding site [chemical binding]; other site 649349008473 Q-loop/lid; other site 649349008474 ABC transporter signature motif; other site 649349008475 Walker B; other site 649349008476 D-loop; other site 649349008477 H-loop/switch region; other site 649349008478 META domain; Region: META; pfam03724 649349008479 Transposase; Region: HTH_Tnp_1; cl17663 649349008480 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 649349008481 Homeodomain-like domain; Region: HTH_23; cl17451 649349008482 putative transposase OrfB; Reviewed; Region: PHA02517 649349008483 HTH-like domain; Region: HTH_21; pfam13276 649349008484 Integrase core domain; Region: rve; pfam00665 649349008485 Integrase core domain; Region: rve_3; cl15866 649349008486 acetyl-CoA synthetase; Provisional; Region: PRK00174 649349008487 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 649349008488 active site 649349008489 CoA binding site [chemical binding]; other site 649349008490 acyl-activating enzyme (AAE) consensus motif; other site 649349008491 AMP binding site [chemical binding]; other site 649349008492 acetate binding site [chemical binding]; other site 649349008493 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 649349008494 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 649349008495 homotrimer interaction site [polypeptide binding]; other site 649349008496 putative active site [active] 649349008497 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 649349008498 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 649349008499 Glutamate binding site [chemical binding]; other site 649349008500 NAD binding site [chemical binding]; other site 649349008501 catalytic residues [active] 649349008502 Uncharacterized conserved protein [Function unknown]; Region: COG2353 649349008503 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 649349008504 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 649349008505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349008506 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 649349008507 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 649349008508 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 649349008509 S-adenosylmethionine binding site [chemical binding]; other site 649349008510 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 649349008511 Mechanosensitive ion channel; Region: MS_channel; pfam00924 649349008512 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 649349008513 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 649349008514 active site 649349008515 catalytic site [active] 649349008516 substrate binding site [chemical binding]; other site 649349008517 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 649349008518 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 649349008519 dimer interface [polypeptide binding]; other site 649349008520 ssDNA binding site [nucleotide binding]; other site 649349008521 tetramer (dimer of dimers) interface [polypeptide binding]; other site 649349008522 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 649349008523 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 649349008524 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 649349008525 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 649349008526 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 649349008527 motif II; other site 649349008528 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 649349008529 dimer interface [polypeptide binding]; other site 649349008530 [2Fe-2S] cluster binding site [ion binding]; other site 649349008531 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 649349008532 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 649349008533 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 649349008534 shikimate binding site; other site 649349008535 NAD(P) binding site [chemical binding]; other site 649349008536 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 649349008537 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 649349008538 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679 649349008539 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 649349008540 Surface antigen; Region: Bac_surface_Ag; pfam01103 649349008541 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 649349008542 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 649349008543 tandem repeat interface [polypeptide binding]; other site 649349008544 oligomer interface [polypeptide binding]; other site 649349008545 active site residues [active] 649349008546 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 649349008547 tandem repeat interface [polypeptide binding]; other site 649349008548 oligomer interface [polypeptide binding]; other site 649349008549 active site residues [active] 649349008550 PspC domain; Region: PspC; pfam04024 649349008551 Protein of unknown function (DUF4056); Region: DUF4056; pfam13265 649349008552 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 649349008553 PspC domain; Region: PspC; pfam04024 649349008554 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 649349008555 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 649349008556 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 649349008557 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 649349008558 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 649349008559 putative acyl-acceptor binding pocket; other site 649349008560 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 649349008561 homodimer interface [polypeptide binding]; other site 649349008562 putative substrate binding pocket [chemical binding]; other site 649349008563 diiron center [ion binding]; other site 649349008564 VanZ like family; Region: VanZ; cl01971 649349008565 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 649349008566 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 649349008567 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 649349008568 dimer interface [polypeptide binding]; other site 649349008569 anticodon binding site; other site 649349008570 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 649349008571 homodimer interface [polypeptide binding]; other site 649349008572 motif 1; other site 649349008573 active site 649349008574 motif 2; other site 649349008575 GAD domain; Region: GAD; pfam02938 649349008576 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 649349008577 active site 649349008578 motif 3; other site 649349008579 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 649349008580 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 649349008581 catalytic residue [active] 649349008582 putative FPP diphosphate binding site; other site 649349008583 putative FPP binding hydrophobic cleft; other site 649349008584 dimer interface [polypeptide binding]; other site 649349008585 putative IPP diphosphate binding site; other site 649349008586 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 649349008587 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 649349008588 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 649349008589 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 649349008590 Surface antigen; Region: Bac_surface_Ag; pfam01103 649349008591 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 649349008592 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 649349008593 gamma-glutamyl kinase; Provisional; Region: PRK05429 649349008594 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 649349008595 nucleotide binding site [chemical binding]; other site 649349008596 substrate binding site [chemical binding]; other site 649349008597 PUA domain; Region: PUA; pfam01472 649349008598 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 649349008599 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 649349008600 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 649349008601 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 649349008602 putative dimer interface [polypeptide binding]; other site 649349008603 putative anticodon binding site; other site 649349008604 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 649349008605 homodimer interface [polypeptide binding]; other site 649349008606 motif 1; other site 649349008607 motif 2; other site 649349008608 active site 649349008609 motif 3; other site 649349008610 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349008611 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 649349008612 dimer interface [polypeptide binding]; other site 649349008613 phosphorylation site [posttranslational modification] 649349008614 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349008615 ATP binding site [chemical binding]; other site 649349008616 Mg2+ binding site [ion binding]; other site 649349008617 G-X-G motif; other site 649349008618 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 649349008619 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349008620 active site 649349008621 phosphorylation site [posttranslational modification] 649349008622 intermolecular recognition site; other site 649349008623 dimerization interface [polypeptide binding]; other site 649349008624 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 649349008625 DNA binding site [nucleotide binding] 649349008626 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 649349008627 active site clefts [active] 649349008628 zinc binding site [ion binding]; other site 649349008629 dimer interface [polypeptide binding]; other site 649349008630 heat shock protein 90; Provisional; Region: PRK05218 649349008631 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349008632 ATP binding site [chemical binding]; other site 649349008633 Mg2+ binding site [ion binding]; other site 649349008634 G-X-G motif; other site 649349008635 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 649349008636 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 649349008637 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 649349008638 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 649349008639 homodimer interface [polypeptide binding]; other site 649349008640 NADP binding site [chemical binding]; other site 649349008641 substrate binding site [chemical binding]; other site 649349008642 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349008643 putative substrate translocation pore; other site 649349008644 Major Facilitator Superfamily; Region: MFS_1; pfam07690 649349008645 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 649349008646 active site 649349008647 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 649349008648 DivIVA domain; Region: DivI1A_domain; TIGR03544 649349008649 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 649349008650 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 649349008651 FOG: WD40 repeat [General function prediction only]; Region: COG2319 649349008652 structural tetrad; other site 649349008653 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 649349008654 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 649349008655 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 649349008656 pantoate--beta-alanine ligase; Region: panC; TIGR00018 649349008657 Pantoate-beta-alanine ligase; Region: PanC; cd00560 649349008658 active site 649349008659 ATP-binding site [chemical binding]; other site 649349008660 pantoate-binding site; other site 649349008661 HXXH motif; other site 649349008662 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 649349008663 Peptidase family M23; Region: Peptidase_M23; pfam01551 649349008664 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 649349008665 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 649349008666 NADP binding site [chemical binding]; other site 649349008667 Transcriptional regulator; Region: Rrf2; pfam02082 649349008668 Rrf2 family protein; Region: rrf2_super; TIGR00738 649349008669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 649349008670 Putative glucoamylase; Region: Glycoamylase; pfam10091 649349008671 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 649349008672 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 649349008673 glutaminase active site [active] 649349008674 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 649349008675 dimer interface [polypeptide binding]; other site 649349008676 active site 649349008677 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 649349008678 dimer interface [polypeptide binding]; other site 649349008679 active site 649349008680 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 649349008681 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 649349008682 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 649349008683 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 649349008684 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 649349008685 ribonuclease P; Reviewed; Region: rnpA; PRK01903 649349008686 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 649349008687 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 649349008688 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 649349008689 protein binding site [polypeptide binding]; other site 649349008690 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 649349008691 Catalytic dyad [active] 649349008692 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 649349008693 Glycoprotease family; Region: Peptidase_M22; pfam00814 649349008694 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 649349008695 30S subunit binding site; other site 649349008696 SnoaL-like domain; Region: SnoaL_2; pfam12680 649349008697 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; cl00224 649349008698 chorismate binding enzyme; Region: Chorismate_bind; cl10555 649349008699 glycine dehydrogenase; Provisional; Region: PRK05367 649349008700 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 649349008701 tetramer interface [polypeptide binding]; other site 649349008702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349008703 catalytic residue [active] 649349008704 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 649349008705 tetramer interface [polypeptide binding]; other site 649349008706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 649349008707 catalytic residue [active] 649349008708 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 649349008709 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 649349008710 PA/protease or protease-like domain interface [polypeptide binding]; other site 649349008711 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 649349008712 Peptidase family M28; Region: Peptidase_M28; pfam04389 649349008713 metal binding site [ion binding]; metal-binding site 649349008714 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 649349008715 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 649349008716 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 649349008717 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 649349008718 PBP superfamily domain; Region: PBP_like_2; cl17296 649349008719 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 649349008720 adenylate kinase; Reviewed; Region: adk; PRK00279 649349008721 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 649349008722 AMP-binding site [chemical binding]; other site 649349008723 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 649349008724 GTPase CgtA; Reviewed; Region: obgE; PRK12299 649349008725 GTP1/OBG; Region: GTP1_OBG; pfam01018 649349008726 Obg GTPase; Region: Obg; cd01898 649349008727 G1 box; other site 649349008728 GTP/Mg2+ binding site [chemical binding]; other site 649349008729 Switch I region; other site 649349008730 G2 box; other site 649349008731 G3 box; other site 649349008732 Switch II region; other site 649349008733 G4 box; other site 649349008734 G5 box; other site 649349008735 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 649349008736 NADH dehydrogenase subunit B; Provisional; Region: PRK14820 649349008737 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 649349008738 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 649349008739 NADH dehydrogenase subunit D; Validated; Region: PRK06075 649349008740 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 649349008741 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 649349008742 putative dimer interface [polypeptide binding]; other site 649349008743 [2Fe-2S] cluster binding site [ion binding]; other site 649349008744 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 649349008745 SLBB domain; Region: SLBB; pfam10531 649349008746 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 649349008747 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 649349008748 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 649349008749 catalytic loop [active] 649349008750 iron binding site [ion binding]; other site 649349008751 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 649349008752 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 649349008753 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 649349008754 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 649349008755 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 649349008756 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 649349008757 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 649349008758 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 649349008759 trimer interface [polypeptide binding]; other site 649349008760 putative metal binding site [ion binding]; other site 649349008761 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349008762 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 649349008763 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 649349008764 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 649349008765 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 649349008766 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 649349008767 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349008768 Walker A/P-loop; other site 649349008769 ATP binding site [chemical binding]; other site 649349008770 Q-loop/lid; other site 649349008771 ABC transporter signature motif; other site 649349008772 Walker B; other site 649349008773 D-loop; other site 649349008774 H-loop/switch region; other site 649349008775 ABC transporter; Region: ABC_tran_2; pfam12848 649349008776 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 649349008777 MFS transport protein AraJ; Provisional; Region: PRK10091 649349008778 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349008779 putative substrate translocation pore; other site 649349008780 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 649349008781 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 649349008782 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 649349008783 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 649349008784 conserved cys residue [active] 649349008785 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349008786 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 649349008787 putative hydrophobic ligand binding site [chemical binding]; other site 649349008788 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 649349008789 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 649349008790 Na binding site [ion binding]; other site 649349008791 putative glycosylation site [posttranslational modification]; other site 649349008792 putative glycosylation site [posttranslational modification]; other site 649349008793 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349008794 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349008795 YtkA-like; Region: YtkA; pfam13115 649349008796 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 649349008797 putative hydrophobic ligand binding site [chemical binding]; other site 649349008798 thymidine kinase; Provisional; Region: PRK04296 649349008799 Protein of unknown function, DUF606; Region: DUF606; pfam04657 649349008800 CsbD-like; Region: CsbD; pfam05532 649349008801 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 649349008802 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 649349008803 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 649349008804 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 649349008805 Walker A/P-loop; other site 649349008806 ATP binding site [chemical binding]; other site 649349008807 Q-loop/lid; other site 649349008808 ABC transporter signature motif; other site 649349008809 Walker B; other site 649349008810 D-loop; other site 649349008811 H-loop/switch region; other site 649349008812 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 649349008813 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 649349008814 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 649349008815 NodB motif; other site 649349008816 putative active site [active] 649349008817 putative catalytic site [active] 649349008818 putative Zn binding site [ion binding]; other site 649349008819 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 649349008820 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 649349008821 active site 649349008822 catalytic triad [active] 649349008823 oxyanion hole [active] 649349008824 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 649349008825 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 649349008826 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 649349008827 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 649349008828 active site 649349008829 (T/H)XGH motif; other site 649349008830 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349008831 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 649349008832 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 649349008833 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 649349008834 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 649349008835 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 649349008836 Tetratricopeptide repeat; Region: TPR_12; pfam13424 649349008837 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349008838 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 649349008839 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349008840 ATP binding site [chemical binding]; other site 649349008841 Mg2+ binding site [ion binding]; other site 649349008842 G-X-G motif; other site 649349008843 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 649349008844 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 649349008845 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 649349008846 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 649349008847 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 649349008848 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349008849 active site 649349008850 phosphorylation site [posttranslational modification] 649349008851 intermolecular recognition site; other site 649349008852 dimerization interface [polypeptide binding]; other site 649349008853 LytTr DNA-binding domain; Region: LytTR; smart00850 649349008854 Tetratricopeptide repeat; Region: TPR_12; pfam13424 649349008855 Tetratricopeptide repeat; Region: TPR_12; pfam13424 649349008856 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 649349008857 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 649349008858 dimer interface [polypeptide binding]; other site 649349008859 phosphorylation site [posttranslational modification] 649349008860 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349008861 ATP binding site [chemical binding]; other site 649349008862 Mg2+ binding site [ion binding]; other site 649349008863 G-X-G motif; other site 649349008864 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 649349008865 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 649349008866 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349008867 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 649349008868 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 649349008869 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 649349008870 putative transposase OrfB; Reviewed; Region: PHA02517 649349008871 HTH-like domain; Region: HTH_21; pfam13276 649349008872 Integrase core domain; Region: rve; pfam00665 649349008873 Integrase core domain; Region: rve_3; pfam13683 649349008874 Transposase; Region: HTH_Tnp_1; pfam01527 649349008875 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 649349008876 non-specific DNA binding site [nucleotide binding]; other site 649349008877 salt bridge; other site 649349008878 sequence-specific DNA binding site [nucleotide binding]; other site 649349008879 dihydroxy-acid dehydratase; Validated; Region: PRK06131 649349008880 GntP family permease; Region: GntP_permease; pfam02447 649349008881 fructuronate transporter; Provisional; Region: PRK10034; cl15264 649349008882 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 649349008883 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 649349008884 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 649349008885 ABC transporter; Region: ABC_tran_2; pfam12848 649349008886 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 649349008887 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 649349008888 heme-binding site [chemical binding]; other site 649349008889 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 649349008890 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 649349008891 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 649349008892 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 649349008893 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 649349008894 active site 649349008895 FMN binding site [chemical binding]; other site 649349008896 substrate binding site [chemical binding]; other site 649349008897 3Fe-4S cluster binding site [ion binding]; other site 649349008898 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 649349008899 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 649349008900 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 649349008901 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 649349008902 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 649349008903 ArsC family; Region: ArsC; pfam03960 649349008904 putative catalytic residues [active] 649349008905 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 649349008906 catalytic residues [active] 649349008907 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 649349008908 catalytic residues [active] 649349008909 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 649349008910 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 649349008911 S1 domain; Region: S1_2; pfam13509 649349008912 S1 domain; Region: S1_2; pfam13509 649349008913 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 649349008914 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 649349008915 dimer interface [polypeptide binding]; other site 649349008916 decamer (pentamer of dimers) interface [polypeptide binding]; other site 649349008917 catalytic triad [active] 649349008918 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 649349008919 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 649349008920 Walker A/P-loop; other site 649349008921 ATP binding site [chemical binding]; other site 649349008922 Q-loop/lid; other site 649349008923 ABC transporter signature motif; other site 649349008924 Walker B; other site 649349008925 D-loop; other site 649349008926 H-loop/switch region; other site 649349008927 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 649349008928 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 649349008929 FtsX-like permease family; Region: FtsX; pfam02687 649349008930 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 649349008931 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 649349008932 dimer interface [polypeptide binding]; other site 649349008933 Citrate synthase; Region: Citrate_synt; pfam00285 649349008934 active site 649349008935 citrylCoA binding site [chemical binding]; other site 649349008936 NADH binding [chemical binding]; other site 649349008937 cationic pore residues; other site 649349008938 oxalacetate/citrate binding site [chemical binding]; other site 649349008939 coenzyme A binding site [chemical binding]; other site 649349008940 catalytic triad [active] 649349008941 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 649349008942 Zonular occludens toxin (Zot); Region: Zot; cl17485 649349008943 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 649349008944 active site 649349008945 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 649349008946 Zn binding site [ion binding]; other site 649349008947 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 649349008948 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 649349008949 active site 649349008950 NTP binding site [chemical binding]; other site 649349008951 metal binding triad [ion binding]; metal-binding site 649349008952 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 649349008953 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 649349008954 Zn2+ binding site [ion binding]; other site 649349008955 Mg2+ binding site [ion binding]; other site 649349008956 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 649349008957 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 649349008958 active site 649349008959 dimer interface [polypeptide binding]; other site 649349008960 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 649349008961 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 649349008962 Interdomain contacts; other site 649349008963 Cytokine receptor motif; other site 649349008964 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 649349008965 Interdomain contacts; other site 649349008966 Cytokine receptor motif; other site 649349008967 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349008968 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 649349008969 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 649349008970 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349008971 putative substrate translocation pore; other site 649349008972 Major Facilitator Superfamily; Region: MFS_1; pfam07690 649349008973 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 649349008974 active site 649349008975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 649349008976 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 649349008977 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 649349008978 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 649349008979 active site 649349008980 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 649349008981 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 649349008982 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 649349008983 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 649349008984 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 649349008985 active site 649349008986 substrate binding site [chemical binding]; other site 649349008987 metal binding site [ion binding]; metal-binding site 649349008988 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 649349008989 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 649349008990 active site 649349008991 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 649349008992 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 649349008993 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 649349008994 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 649349008995 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 649349008996 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 649349008997 Cupin-like domain; Region: Cupin_8; pfam13621 649349008998 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 649349008999 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 649349009000 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 649349009001 homodimer interface [polypeptide binding]; other site 649349009002 metal binding site [ion binding]; metal-binding site 649349009003 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 649349009004 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 649349009005 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 649349009006 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 649349009007 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 649349009008 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 649349009009 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 649349009010 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 649349009011 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 649349009012 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349009013 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349009014 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349009015 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349009016 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 649349009017 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 649349009018 catalytic residues [active] 649349009019 GldH lipoprotein; Region: GldH_lipo; pfam14109 649349009020 PSP1 C-terminal conserved region; Region: PSP1; cl00770 649349009021 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 649349009022 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 649349009023 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 649349009024 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 649349009025 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 649349009026 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 649349009027 RNA binding surface [nucleotide binding]; other site 649349009028 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 649349009029 active site 649349009030 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 649349009031 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 649349009032 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 649349009033 BNR repeat-like domain; Region: BNR_2; pfam13088 649349009034 Thermus thermophiles TTHB029 and similar proteins; Region: YdjC_TTHB029_like; cd10802 649349009035 putative active site [active] 649349009036 YdjC motif; other site 649349009037 Mg binding site [ion binding]; other site 649349009038 homodimer interface [polypeptide binding]; other site 649349009039 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 649349009040 Sodium Bile acid symporter family; Region: SBF; cl17470 649349009041 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 649349009042 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349009043 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 649349009044 DNA binding residues [nucleotide binding] 649349009045 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 649349009046 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 649349009047 active site 649349009048 metal binding site [ion binding]; metal-binding site 649349009049 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349009050 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 649349009051 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 649349009052 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349009053 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 649349009054 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349009055 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349009056 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; pfam10142 649349009057 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 649349009058 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 649349009059 putative dimerization interface [polypeptide binding]; other site 649349009060 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 649349009061 putative ligand binding site [chemical binding]; other site 649349009062 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 649349009063 Helix-turn-helix domain; Region: HTH_18; pfam12833 649349009064 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349009065 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 649349009066 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 649349009067 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 649349009068 active site 649349009069 dimer interface [polypeptide binding]; other site 649349009070 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 649349009071 dimer interface [polypeptide binding]; other site 649349009072 active site 649349009073 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 649349009074 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 649349009075 active site 649349009076 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 649349009077 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 649349009078 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 649349009079 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 649349009080 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 649349009081 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 649349009082 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 649349009083 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 649349009084 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06589 649349009085 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 649349009086 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 649349009087 Predicted dehydrogenase [General function prediction only]; Region: COG0579 649349009088 hydroxyglutarate oxidase; Provisional; Region: PRK11728 649349009089 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 649349009090 Flavoprotein; Region: Flavoprotein; pfam02441 649349009091 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 649349009092 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 649349009093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349009094 NAD(P) binding site [chemical binding]; other site 649349009095 active site 649349009096 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 649349009097 FAD binding domain; Region: FAD_binding_4; pfam01565 649349009098 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 649349009099 EamA-like transporter family; Region: EamA; pfam00892 649349009100 ZU5 domain; Region: ZU5; cl02517 649349009101 Tetratricopeptide repeat; Region: TPR_12; pfam13424 649349009102 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 649349009103 binding surface 649349009104 TPR motif; other site 649349009105 Tetratricopeptide repeat; Region: TPR_12; pfam13424 649349009106 Tetratricopeptide repeat; Region: TPR_12; pfam13424 649349009107 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 649349009108 Histidine kinase; Region: HisKA_3; pfam07730 649349009109 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349009110 ATP binding site [chemical binding]; other site 649349009111 Mg2+ binding site [ion binding]; other site 649349009112 G-X-G motif; other site 649349009113 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 649349009114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 649349009115 active site 649349009116 phosphorylation site [posttranslational modification] 649349009117 intermolecular recognition site; other site 649349009118 dimerization interface [polypeptide binding]; other site 649349009119 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 649349009120 DNA binding residues [nucleotide binding] 649349009121 dimerization interface [polypeptide binding]; other site 649349009122 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 649349009123 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 649349009124 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349009125 transcription termination factor Rho; Provisional; Region: rho; PRK09376 649349009126 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 649349009127 RNA binding site [nucleotide binding]; other site 649349009128 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 649349009129 multimer interface [polypeptide binding]; other site 649349009130 Walker A motif; other site 649349009131 ATP binding site [chemical binding]; other site 649349009132 Walker B motif; other site 649349009133 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 649349009134 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 649349009135 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 649349009136 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 649349009137 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 649349009138 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 649349009139 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 649349009140 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 649349009141 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 649349009142 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 649349009143 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 649349009144 active site 649349009145 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 649349009146 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 649349009147 putative metal binding site [ion binding]; other site 649349009148 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase; Region: PLPDE_III_D-TA; cd06821 649349009149 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 649349009150 dimer interface [polypeptide binding]; other site 649349009151 active site 649349009152 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 649349009153 substrate binding site [chemical binding]; other site 649349009154 catalytic residue [active] 649349009155 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 649349009156 oligomerisation interface [polypeptide binding]; other site 649349009157 mobile loop; other site 649349009158 roof hairpin; other site 649349009159 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 649349009160 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 649349009161 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349009162 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349009163 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349009164 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349009165 SusD family; Region: SusD; pfam07980 649349009166 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 649349009167 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 649349009168 active site 649349009169 metal binding site [ion binding]; metal-binding site 649349009170 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 649349009171 Trp docking motif [polypeptide binding]; other site 649349009172 PQQ-like domain; Region: PQQ_2; pfam13360 649349009173 active site 649349009174 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 649349009175 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 649349009176 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 649349009177 nucleotide binding region [chemical binding]; other site 649349009178 ATP-binding site [chemical binding]; other site 649349009179 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 649349009180 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 649349009181 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 649349009182 Cna protein B-type domain; Region: Cna_B_2; pfam13715 649349009183 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 649349009184 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 649349009185 starch binding outer membrane protein SusD; Region: SusD; cl17845 649349009186 SusD family; Region: SusD; pfam07980 649349009187 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 649349009188 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 649349009189 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 649349009190 Na binding site [ion binding]; other site 649349009191 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 649349009192 active site 649349009193 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 649349009194 dimerization interface [polypeptide binding]; other site 649349009195 putative active cleft [active] 649349009196 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 649349009197 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349009198 ligand binding site [chemical binding]; other site 649349009199 Uncharacterized conserved protein [Function unknown]; Region: COG3743 649349009200 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 649349009201 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 649349009202 active site 649349009203 motif I; other site 649349009204 motif II; other site 649349009205 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 649349009206 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 649349009207 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 649349009208 carboxy-terminal protease; Provisional; Region: PRK11186 649349009209 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 649349009210 protein binding site [polypeptide binding]; other site 649349009211 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 649349009212 Catalytic dyad [active] 649349009213 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 649349009214 Amino acid permease; Region: AA_permease_2; pfam13520 649349009215 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 649349009216 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 649349009217 substrate binding pocket [chemical binding]; other site 649349009218 chain length determination region; other site 649349009219 substrate-Mg2+ binding site; other site 649349009220 catalytic residues [active] 649349009221 aspartate-rich region 1; other site 649349009222 active site lid residues [active] 649349009223 aspartate-rich region 2; other site 649349009224 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 649349009225 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349009226 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349009227 YciI-like protein; Reviewed; Region: PRK12866 649349009228 S-formylglutathione hydrolase; Region: PLN02442 649349009229 Putative esterase; Region: Esterase; pfam00756 649349009230 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 649349009231 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 649349009232 G1 box; other site 649349009233 putative GEF interaction site [polypeptide binding]; other site 649349009234 GTP/Mg2+ binding site [chemical binding]; other site 649349009235 Switch I region; other site 649349009236 G2 box; other site 649349009237 G3 box; other site 649349009238 Switch II region; other site 649349009239 G4 box; other site 649349009240 G5 box; other site 649349009241 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 649349009242 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 649349009243 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 649349009244 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 649349009245 GLPGLI family protein; Region: GLPGLI; TIGR01200 649349009246 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 649349009247 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 649349009248 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 649349009249 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 649349009250 Walker A motif; other site 649349009251 ATP binding site [chemical binding]; other site 649349009252 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 649349009253 Walker B motif; other site 649349009254 arginine finger; other site 649349009255 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 649349009256 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 649349009257 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 649349009258 substrate binding site [chemical binding]; other site 649349009259 hexamer interface [polypeptide binding]; other site 649349009260 metal binding site [ion binding]; metal-binding site 649349009261 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 649349009262 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 649349009263 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 649349009264 catalytic residue [active] 649349009265 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 649349009266 dimer interaction site [polypeptide binding]; other site 649349009267 substrate-binding tunnel; other site 649349009268 active site 649349009269 catalytic site [active] 649349009270 substrate binding site [chemical binding]; other site 649349009271 SnoaL-like domain; Region: SnoaL_3; pfam13474 649349009272 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 649349009273 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 649349009274 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 649349009275 putative rRNA binding site [nucleotide binding]; other site 649349009276 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 649349009277 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 649349009278 putative substrate translocation pore; other site 649349009279 POT family; Region: PTR2; cl17359 649349009280 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 649349009281 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 649349009282 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 649349009283 Walker A/P-loop; other site 649349009284 ATP binding site [chemical binding]; other site 649349009285 Q-loop/lid; other site 649349009286 ABC transporter signature motif; other site 649349009287 Walker B; other site 649349009288 D-loop; other site 649349009289 H-loop/switch region; other site 649349009290 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 649349009291 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 649349009292 Transglycosylase; Region: Transgly; pfam00912 649349009293 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 649349009294 GTP-binding protein YchF; Reviewed; Region: PRK09601 649349009295 YchF GTPase; Region: YchF; cd01900 649349009296 G1 box; other site 649349009297 GTP/Mg2+ binding site [chemical binding]; other site 649349009298 Switch I region; other site 649349009299 G2 box; other site 649349009300 Switch II region; other site 649349009301 G3 box; other site 649349009302 G4 box; other site 649349009303 G5 box; other site 649349009304 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 649349009305 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 649349009306 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 649349009307 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 649349009308 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 649349009309 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 649349009310 MoxR-like ATPases [General function prediction only]; Region: COG0714 649349009311 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 649349009312 Walker A motif; other site 649349009313 ATP binding site [chemical binding]; other site 649349009314 Walker B motif; other site 649349009315 arginine finger; other site 649349009316 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 649349009317 Protein of unknown function DUF58; Region: DUF58; pfam01882 649349009318 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 649349009319 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 649349009320 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 649349009321 dimer interface [polypeptide binding]; other site 649349009322 phosphorylation site [posttranslational modification] 649349009323 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 649349009324 ATP binding site [chemical binding]; other site 649349009325 Mg2+ binding site [ion binding]; other site 649349009326 G-X-G motif; other site 649349009327 Part of AAA domain; Region: AAA_19; pfam13245 649349009328 putative recombination protein RecB; Provisional; Region: PRK13909 649349009329 Family description; Region: UvrD_C_2; pfam13538 649349009330 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 649349009331 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 649349009332 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349009333 cytidylate kinase; Provisional; Region: cmk; PRK00023 649349009334 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 649349009335 CMP-binding site; other site 649349009336 The sites determining sugar specificity; other site 649349009337 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 649349009338 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 649349009339 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 649349009340 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 649349009341 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 649349009342 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 649349009343 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349009344 ligand binding site [chemical binding]; other site 649349009345 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 649349009346 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 649349009347 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 649349009348 TPP-binding site [chemical binding]; other site 649349009349 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 649349009350 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 649349009351 E3 interaction surface; other site 649349009352 lipoyl attachment site [posttranslational modification]; other site 649349009353 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 649349009354 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 649349009355 E3 interaction surface; other site 649349009356 lipoyl attachment site [posttranslational modification]; other site 649349009357 e3 binding domain; Region: E3_binding; pfam02817 649349009358 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 649349009359 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 649349009360 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 649349009361 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 649349009362 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 649349009363 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 649349009364 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 649349009365 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 649349009366 Protein of unknown function (DUF418); Region: DUF418; cl12135 649349009367 Protein of unknown function (DUF418); Region: DUF418; pfam04235 649349009368 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 649349009369 active site 649349009370 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 649349009371 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 649349009372 homotrimer interaction site [polypeptide binding]; other site 649349009373 putative active site [active] 649349009374 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 649349009375 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 649349009376 active site 649349009377 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 649349009378 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 649349009379 Zn binding site [ion binding]; other site 649349009380 Restriction endonuclease; Region: Mrr_cat; pfam04471 649349009381 Transcriptional regulator [Transcription]; Region: LysR; COG0583 649349009382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 649349009383 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 649349009384 dimerization interface [polypeptide binding]; other site 649349009385 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 649349009386 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 649349009387 dimer interface [polypeptide binding]; other site 649349009388 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 649349009389 active site 649349009390 Fe binding site [ion binding]; other site 649349009391 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 649349009392 fumarylacetoacetase; Region: PLN02856 649349009393 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 649349009394 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 649349009395 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 649349009396 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 649349009397 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 649349009398 Cation efflux family; Region: Cation_efflux; pfam01545 649349009399 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 649349009400 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 649349009401 Ligand binding site; other site 649349009402 Putative Catalytic site; other site 649349009403 DXD motif; other site 649349009404 YceI-like domain; Region: YceI; pfam04264 649349009405 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 649349009406 active site 649349009407 hydrophilic channel; other site 649349009408 dimerization interface [polypeptide binding]; other site 649349009409 catalytic residues [active] 649349009410 active site lid [active] 649349009411 Yqey-like protein; Region: YqeY; cl17540 649349009412 Colicin V production protein; Region: Colicin_V; pfam02674 649349009413 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 649349009414 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 649349009415 ATP-grasp domain; Region: ATP-grasp_4; cl17255 649349009416 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 649349009417 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 649349009418 motif 1; other site 649349009419 active site 649349009420 motif 2; other site 649349009421 motif 3; other site 649349009422 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 649349009423 DHHA1 domain; Region: DHHA1; pfam02272 649349009424 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 649349009425 glycogen branching enzyme; Provisional; Region: PRK12313 649349009426 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 649349009427 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 649349009428 active site 649349009429 catalytic site [active] 649349009430 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 649349009431 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 649349009432 EamA-like transporter family; Region: EamA; pfam00892 649349009433 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 649349009434 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 649349009435 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 649349009436 mannonate dehydratase; Region: uxuA; TIGR00695 649349009437 mannonate dehydratase; Provisional; Region: PRK03906 649349009438 Protein of unknown function (DUF2452); Region: DUF2452; pfam10504 649349009439 EVE domain; Region: EVE; pfam01878 649349009440 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 649349009441 binding surface 649349009442 TPR motif; other site 649349009443 TPR repeat; Region: TPR_11; pfam13414 649349009444 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 649349009445 binding surface 649349009446 TPR motif; other site 649349009447 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 649349009448 binding surface 649349009449 TPR motif; other site 649349009450 TPR repeat; Region: TPR_11; pfam13414 649349009451 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 649349009452 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 649349009453 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 649349009454 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 649349009455 active site 649349009456 dimer interface [polypeptide binding]; other site 649349009457 motif 1; other site 649349009458 motif 2; other site 649349009459 motif 3; other site 649349009460 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 649349009461 anticodon binding site; other site 649349009462 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 649349009463 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 649349009464 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 649349009465 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 649349009466 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 649349009467 active site 649349009468 catalytic tetrad [active] 649349009469 recombination factor protein RarA; Reviewed; Region: PRK13342 649349009470 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 649349009471 Walker A motif; other site 649349009472 ATP binding site [chemical binding]; other site 649349009473 Walker B motif; other site 649349009474 arginine finger; other site 649349009475 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 649349009476 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 649349009477 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 649349009478 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 649349009479 Ligand binding site; other site 649349009480 Putative Catalytic site; other site 649349009481 DXD motif; other site 649349009482 Methyltransferase domain; Region: Methyltransf_31; pfam13847 649349009483 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 649349009484 S-adenosylmethionine binding site [chemical binding]; other site 649349009485 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 649349009486 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 649349009487 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 649349009488 active site 649349009489 RNA/DNA hybrid binding site [nucleotide binding]; other site 649349009490 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 649349009491 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 649349009492 ATP-grasp domain; Region: ATP-grasp_4; cl17255 649349009493 ATP-grasp domain; Region: ATP-grasp_4; cl17255 649349009494 NifU-like domain; Region: NifU; cl00484 649349009495 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 649349009496 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 649349009497 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 649349009498 ligand binding site [chemical binding]; other site 649349009499 GSCFA family; Region: GSCFA; pfam08885 649349009500 antiporter inner membrane protein; Provisional; Region: PRK11670 649349009501 Domain of unknown function DUF59; Region: DUF59; pfam01883 649349009502 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 649349009503 Walker A motif; other site 649349009504 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 649349009505 Beta-lactamase; Region: Beta-lactamase; pfam00144 649349009506 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 649349009507 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 649349009508 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 649349009509 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 649349009510 DNA binding residues [nucleotide binding] 649349009511 YCII-related domain; Region: YCII; pfam03795 649349009512 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 649349009513 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 649349009514 Peptidase family U32; Region: Peptidase_U32; pfam01136 649349009515 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 649349009516 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349009517 Walker A/P-loop; other site 649349009518 ATP binding site [chemical binding]; other site 649349009519 Q-loop/lid; other site 649349009520 ABC transporter signature motif; other site 649349009521 Walker B; other site 649349009522 D-loop; other site 649349009523 H-loop/switch region; other site 649349009524 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 649349009525 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 649349009526 Coenzyme A binding pocket [chemical binding]; other site 649349009527 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 649349009528 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 649349009529 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 649349009530 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 649349009531 HEAT repeats; Region: HEAT_2; pfam13646 649349009532 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 649349009533 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349009534 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 649349009535 DNA binding residues [nucleotide binding] 649349009536 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 649349009537 metal-binding site [ion binding] 649349009538 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 649349009539 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 649349009540 metal-binding site [ion binding] 649349009541 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 649349009542 Soluble P-type ATPase [General function prediction only]; Region: COG4087 649349009543 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 649349009544 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 649349009545 Walker A/P-loop; other site 649349009546 ATP binding site [chemical binding]; other site 649349009547 Q-loop/lid; other site 649349009548 ABC transporter signature motif; other site 649349009549 Walker B; other site 649349009550 D-loop; other site 649349009551 H-loop/switch region; other site 649349009552 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 649349009553 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 649349009554 active site 649349009555 HIGH motif; other site 649349009556 dimer interface [polypeptide binding]; other site 649349009557 KMSKS motif; other site 649349009558 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 649349009559 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 649349009560 putative ligand binding site [chemical binding]; other site 649349009561 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 649349009562 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 649349009563 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 649349009564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 649349009565 NADH(P)-binding; Region: NAD_binding_10; pfam13460 649349009566 NAD(P) binding site [chemical binding]; other site 649349009567 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 649349009568 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 649349009569 active site 649349009570 Zn binding site [ion binding]; other site 649349009571 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 649349009572 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 649349009573 E3 interaction surface; other site 649349009574 lipoyl attachment site [posttranslational modification]; other site 649349009575 e3 binding domain; Region: E3_binding; pfam02817 649349009576 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 649349009577 competence damage-inducible protein A; Provisional; Region: PRK00549 649349009578 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 649349009579 putative MPT binding site; other site 649349009580 Competence-damaged protein; Region: CinA; pfam02464 649349009581 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 649349009582 gliding motility-associated protein GldC; Region: GldC; TIGR03515 649349009583 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 649349009584 active site 649349009585 catalytic residues [active] 649349009586 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 649349009587 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 649349009588 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 649349009589 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 649349009590 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 649349009591 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 649349009592 NAD binding site [chemical binding]; other site 649349009593 dimerization interface [polypeptide binding]; other site 649349009594 product binding site; other site 649349009595 substrate binding site [chemical binding]; other site 649349009596 zinc binding site [ion binding]; other site 649349009597 catalytic residues [active] 649349009598 Helix-turn-helix domain; Region: HTH_18; pfam12833 649349009599 OsmC-like protein; Region: OsmC; cl00767 649349009600 acetyl-CoA C-acetyltransferase; Region: PLN02644 649349009601 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 649349009602 dimer interface [polypeptide binding]; other site 649349009603 active site 649349009604 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 649349009605 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 649349009606 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 649349009607 dimer interface [polypeptide binding]; other site 649349009608 substrate binding site [chemical binding]; other site 649349009609 metal binding sites [ion binding]; metal-binding site 649349009610 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 649349009611 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 649349009612 Soluble P-type ATPase [General function prediction only]; Region: COG4087 649349009613 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 649349009614 metal binding site 2 [ion binding]; metal-binding site 649349009615 putative DNA binding helix; other site 649349009616 metal binding site 1 [ion binding]; metal-binding site 649349009617 structural Zn2+ binding site [ion binding]; other site 649349009618 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 649349009619 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 649349009620 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349009621 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 649349009622 Outer membrane efflux protein; Region: OEP; pfam02321 649349009623 Outer membrane efflux protein; Region: OEP; pfam02321 649349009624 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 649349009625 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 649349009626 HlyD family secretion protein; Region: HlyD_3; pfam13437 649349009627 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 649349009628 Outer membrane efflux protein; Region: OEP; pfam02321 649349009629 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 649349009630 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 649349009631 PGAP1-like protein; Region: PGAP1; pfam07819 649349009632 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 649349009633 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 649349009634 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 649349009635 DNA binding residues [nucleotide binding] 649349009636 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 649349009637 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 649349009638 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 649349009639 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 649349009640 ATP synthase A chain; Region: ATP-synt_A; cl00413