-- dump date 20140618_184919 -- class Genbank::misc_feature -- table misc_feature_note -- id note 990288000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 990288000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 990288000003 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 990288000004 Walker A motif; other site 990288000005 ATP binding site [chemical binding]; other site 990288000006 Walker B motif; other site 990288000007 arginine finger; other site 990288000008 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 990288000009 DnaA box-binding interface [nucleotide binding]; other site 990288000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 990288000011 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 990288000012 putative DNA binding surface [nucleotide binding]; other site 990288000013 dimer interface [polypeptide binding]; other site 990288000014 beta-clamp/clamp loader binding surface; other site 990288000015 beta-clamp/translesion DNA polymerase binding surface; other site 990288000016 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 990288000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288000018 Walker A/P-loop; other site 990288000019 ATP binding site [chemical binding]; other site 990288000020 Q-loop/lid; other site 990288000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288000022 ABC transporter signature motif; other site 990288000023 Walker B; other site 990288000024 D-loop; other site 990288000025 H-loop/switch region; other site 990288000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 990288000027 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288000028 ATP binding site [chemical binding]; other site 990288000029 Mg2+ binding site [ion binding]; other site 990288000030 G-X-G motif; other site 990288000031 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 990288000032 anchoring element; other site 990288000033 dimer interface [polypeptide binding]; other site 990288000034 ATP binding site [chemical binding]; other site 990288000035 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 990288000036 active site 990288000037 putative metal-binding site [ion binding]; other site 990288000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 990288000039 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 990288000040 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 990288000041 FAD binding pocket [chemical binding]; other site 990288000042 FAD binding motif [chemical binding]; other site 990288000043 phosphate binding motif [ion binding]; other site 990288000044 beta-alpha-beta structure motif; other site 990288000045 NAD binding pocket [chemical binding]; other site 990288000046 Iron coordination center [ion binding]; other site 990288000047 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 990288000048 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 990288000049 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 990288000050 Switch I; other site 990288000051 Switch II; other site 990288000052 septum formation inhibitor; Reviewed; Region: minC; PRK04804 990288000053 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 990288000054 Ferredoxin [Energy production and conversion]; Region: COG1146 990288000055 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 990288000056 DNA topoisomerase I; Validated; Region: PRK06599 990288000057 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 990288000058 active site 990288000059 interdomain interaction site; other site 990288000060 putative metal-binding site [ion binding]; other site 990288000061 nucleotide binding site [chemical binding]; other site 990288000062 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 990288000063 domain I; other site 990288000064 DNA binding groove [nucleotide binding] 990288000065 phosphate binding site [ion binding]; other site 990288000066 domain II; other site 990288000067 domain III; other site 990288000068 nucleotide binding site [chemical binding]; other site 990288000069 catalytic site [active] 990288000070 domain IV; other site 990288000071 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 990288000072 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 990288000073 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 990288000074 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 990288000075 Protein of unknown function (DUF494); Region: DUF494; cl01103 990288000076 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 990288000077 DNA protecting protein DprA; Region: dprA; TIGR00732 990288000078 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 990288000079 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 990288000080 active site 990288000081 catalytic residues [active] 990288000082 metal binding site [ion binding]; metal-binding site 990288000083 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 990288000084 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 990288000085 putative active site [active] 990288000086 substrate binding site [chemical binding]; other site 990288000087 putative cosubstrate binding site; other site 990288000088 catalytic site [active] 990288000089 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 990288000090 substrate binding site [chemical binding]; other site 990288000091 16S rRNA methyltransferase B; Provisional; Region: PRK10901 990288000092 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 990288000093 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 990288000094 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 990288000095 dimerization interface [polypeptide binding]; other site 990288000096 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 990288000097 putative active site [active] 990288000098 heme pocket [chemical binding]; other site 990288000099 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 990288000100 dimer interface [polypeptide binding]; other site 990288000101 phosphorylation site [posttranslational modification] 990288000102 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288000103 ATP binding site [chemical binding]; other site 990288000104 G-X-G motif; other site 990288000105 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 990288000106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288000107 active site 990288000108 phosphorylation site [posttranslational modification] 990288000109 intermolecular recognition site; other site 990288000110 dimerization interface [polypeptide binding]; other site 990288000111 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 990288000112 Walker A motif; other site 990288000113 ATP binding site [chemical binding]; other site 990288000114 Walker B motif; other site 990288000115 arginine finger; other site 990288000116 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 990288000117 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 990288000118 MPT binding site; other site 990288000119 trimer interface [polypeptide binding]; other site 990288000120 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 990288000121 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 990288000122 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 990288000123 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 990288000124 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 990288000125 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 990288000126 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 990288000127 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 990288000128 P-loop; other site 990288000129 Magnesium ion binding site [ion binding]; other site 990288000130 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 990288000131 Magnesium ion binding site [ion binding]; other site 990288000132 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 990288000133 ParB-like nuclease domain; Region: ParBc; pfam02195 990288000134 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 990288000135 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 990288000136 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 990288000137 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 990288000138 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 990288000139 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 990288000140 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 990288000141 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 990288000142 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 990288000143 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 990288000144 beta subunit interaction interface [polypeptide binding]; other site 990288000145 Walker A motif; other site 990288000146 ATP binding site [chemical binding]; other site 990288000147 Walker B motif; other site 990288000148 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 990288000149 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 990288000150 core domain interface [polypeptide binding]; other site 990288000151 delta subunit interface [polypeptide binding]; other site 990288000152 epsilon subunit interface [polypeptide binding]; other site 990288000153 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 990288000154 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 990288000155 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 990288000156 alpha subunit interaction interface [polypeptide binding]; other site 990288000157 Walker A motif; other site 990288000158 ATP binding site [chemical binding]; other site 990288000159 Walker B motif; other site 990288000160 inhibitor binding site; inhibition site 990288000161 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 990288000162 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 990288000163 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 990288000164 gamma subunit interface [polypeptide binding]; other site 990288000165 epsilon subunit interface [polypeptide binding]; other site 990288000166 LBP interface [polypeptide binding]; other site 990288000167 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 990288000168 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 990288000169 Substrate binding site; other site 990288000170 Mg++ binding site; other site 990288000171 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 990288000172 active site 990288000173 substrate binding site [chemical binding]; other site 990288000174 CoA binding site [chemical binding]; other site 990288000175 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 990288000176 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 990288000177 glutaminase active site [active] 990288000178 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 990288000179 dimer interface [polypeptide binding]; other site 990288000180 active site 990288000181 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 990288000182 dimer interface [polypeptide binding]; other site 990288000183 active site 990288000184 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288000185 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 990288000186 Walker A motif; other site 990288000187 ATP binding site [chemical binding]; other site 990288000188 Walker B motif; other site 990288000189 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 990288000190 DNA-binding interface [nucleotide binding]; DNA binding site 990288000191 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288000192 Integrase core domain; Region: rve; pfam00665 990288000193 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288000194 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 990288000195 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288000196 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 990288000197 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 990288000198 putative active site [active] 990288000199 Tetratricopeptide repeat; Region: TPR_15; pfam13429 990288000200 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 990288000201 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_3; cd03813 990288000202 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 990288000203 Predicted membrane protein [Function unknown]; Region: COG4267 990288000204 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 990288000205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 990288000206 NAD(P) binding site [chemical binding]; other site 990288000207 active site 990288000208 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 990288000209 HDOD domain; Region: HDOD; pfam08668 990288000210 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 990288000211 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288000212 metal binding site [ion binding]; metal-binding site 990288000213 active site 990288000214 I-site; other site 990288000215 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 990288000216 Helix-turn-helix domain; Region: HTH_17; cl17695 990288000217 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 990288000218 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 990288000219 HSP70 interaction site [polypeptide binding]; other site 990288000220 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 990288000221 substrate binding site [polypeptide binding]; other site 990288000222 dimer interface [polypeptide binding]; other site 990288000223 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 990288000224 Part of AAA domain; Region: AAA_19; pfam13245 990288000225 Family description; Region: UvrD_C_2; pfam13538 990288000226 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 990288000227 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288000228 ATP binding site [chemical binding]; other site 990288000229 Mg2+ binding site [ion binding]; other site 990288000230 G-X-G motif; other site 990288000231 osmolarity response regulator; Provisional; Region: ompR; PRK09468 990288000232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288000233 active site 990288000234 phosphorylation site [posttranslational modification] 990288000235 intermolecular recognition site; other site 990288000236 dimerization interface [polypeptide binding]; other site 990288000237 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 990288000238 DNA binding site [nucleotide binding] 990288000239 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 990288000240 dimer interface [polypeptide binding]; other site 990288000241 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 990288000242 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 990288000243 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 990288000244 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 990288000245 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 990288000246 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 990288000247 RmuC family; Region: RmuC; pfam02646 990288000248 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 990288000249 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 990288000250 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 990288000251 RNA methyltransferase, RsmE family; Region: TIGR00046 990288000252 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 990288000253 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 990288000254 active site 990288000255 fructose 1,6-bisphosphatase II; Reviewed; Region: glpX; PRK09479 990288000256 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 990288000257 active site 990288000258 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 990288000259 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 990288000260 TPP-binding site [chemical binding]; other site 990288000261 dimer interface [polypeptide binding]; other site 990288000262 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 990288000263 PYR/PP interface [polypeptide binding]; other site 990288000264 dimer interface [polypeptide binding]; other site 990288000265 TPP binding site [chemical binding]; other site 990288000266 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 990288000267 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 990288000268 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 990288000269 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 990288000270 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 990288000271 Phosphoglycerate kinase; Region: PGK; pfam00162 990288000272 substrate binding site [chemical binding]; other site 990288000273 hinge regions; other site 990288000274 ADP binding site [chemical binding]; other site 990288000275 catalytic site [active] 990288000276 pyruvate kinase; Provisional; Region: PRK05826 990288000277 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 990288000278 domain interfaces; other site 990288000279 active site 990288000280 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 990288000281 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 990288000282 intersubunit interface [polypeptide binding]; other site 990288000283 active site 990288000284 zinc binding site [ion binding]; other site 990288000285 Na+ binding site [ion binding]; other site 990288000286 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 990288000287 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 990288000288 substrate binding site [chemical binding]; other site 990288000289 hexamer interface [polypeptide binding]; other site 990288000290 metal binding site [ion binding]; metal-binding site 990288000291 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 990288000292 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 990288000293 motif II; other site 990288000294 anthranilate synthase component I; Provisional; Region: PRK13565 990288000295 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 990288000296 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 990288000297 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 990288000298 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 990288000299 glutamine binding [chemical binding]; other site 990288000300 catalytic triad [active] 990288000301 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 990288000302 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 990288000303 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 990288000304 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 990288000305 active site 990288000306 ribulose/triose binding site [chemical binding]; other site 990288000307 phosphate binding site [ion binding]; other site 990288000308 substrate (anthranilate) binding pocket [chemical binding]; other site 990288000309 product (indole) binding pocket [chemical binding]; other site 990288000310 OsmC-like protein; Region: OsmC; cl00767 990288000311 Rrf2 family protein; Region: rrf2_super; TIGR00738 990288000312 Transcriptional regulator; Region: Rrf2; pfam02082 990288000313 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 990288000314 diiron binding motif [ion binding]; other site 990288000315 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 990288000316 dimer interface [polypeptide binding]; other site 990288000317 [2Fe-2S] cluster binding site [ion binding]; other site 990288000318 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 990288000319 nodulation ABC transporter NodI; Provisional; Region: PRK13537 990288000320 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288000321 Walker A/P-loop; other site 990288000322 ATP binding site [chemical binding]; other site 990288000323 Q-loop/lid; other site 990288000324 ABC transporter signature motif; other site 990288000325 Walker B; other site 990288000326 D-loop; other site 990288000327 H-loop/switch region; other site 990288000328 ABC-2 type transporter; Region: ABC2_membrane; cl17235 990288000329 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 990288000330 Winged helix-turn helix; Region: HTH_29; pfam13551 990288000331 Helix-turn-helix domain; Region: HTH_28; pfam13518 990288000332 Homeodomain-like domain; Region: HTH_32; pfam13565 990288000333 Winged helix-turn helix; Region: HTH_33; pfam13592 990288000334 DDE superfamily endonuclease; Region: DDE_3; pfam13358 990288000335 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 990288000336 Fic family protein [Function unknown]; Region: COG3177 990288000337 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 990288000338 Fic/DOC family; Region: Fic; pfam02661 990288000339 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 990288000340 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 990288000341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 990288000342 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 990288000343 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 990288000344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 990288000345 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 990288000346 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 990288000347 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 990288000348 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 990288000349 ParB-like nuclease domain; Region: ParBc; pfam02195 990288000350 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 990288000351 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 990288000352 P-loop; other site 990288000353 Magnesium ion binding site [ion binding]; other site 990288000354 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 990288000355 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 990288000356 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 990288000357 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 990288000358 active site 990288000359 catalytic triad [active] 990288000360 dimer interface [polypeptide binding]; other site 990288000361 Transposase domain (DUF772); Region: DUF772; pfam05598 990288000362 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288000363 DDE superfamily endonuclease; Region: DDE_4; cl17710 990288000364 DsrE/DsrF-like family; Region: DrsE; pfam02635 990288000365 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 990288000366 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 990288000367 MarR family; Region: MarR_2; cl17246 990288000368 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 990288000369 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 990288000370 N-acetyl-D-glucosamine binding site [chemical binding]; other site 990288000371 catalytic residue [active] 990288000372 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 990288000373 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 990288000374 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 990288000375 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 990288000376 Ligand binding site; other site 990288000377 Putative Catalytic site; other site 990288000378 DXD motif; other site 990288000379 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 990288000380 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 990288000381 Transposase domain (DUF772); Region: DUF772; pfam05598 990288000382 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288000383 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288000384 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 990288000385 Transposase domain (DUF772); Region: DUF772; pfam05598 990288000386 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288000387 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 990288000388 Transposase; Region: DEDD_Tnp_IS110; pfam01548 990288000389 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 990288000390 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 990288000391 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 990288000392 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 990288000393 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 990288000394 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 990288000395 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 990288000396 Soluble P-type ATPase [General function prediction only]; Region: COG4087 990288000397 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 990288000398 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 990288000399 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 990288000400 substrate binding site [chemical binding]; other site 990288000401 nucleotide binding site [chemical binding]; other site 990288000402 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 990288000403 Transposase domain (DUF772); Region: DUF772; pfam05598 990288000404 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288000405 DDE superfamily endonuclease; Region: DDE_4; cl17710 990288000406 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 990288000407 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288000408 active site 990288000409 phosphorylation site [posttranslational modification] 990288000410 intermolecular recognition site; other site 990288000411 dimerization interface [polypeptide binding]; other site 990288000412 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 990288000413 DNA binding site [nucleotide binding] 990288000414 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 990288000415 putative homodimer interface [polypeptide binding]; other site 990288000416 putative homotetramer interface [polypeptide binding]; other site 990288000417 putative allosteric switch controlling residues; other site 990288000418 putative metal binding site [ion binding]; other site 990288000419 putative homodimer-homodimer interface [polypeptide binding]; other site 990288000420 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 990288000421 active site 990288000422 DNA polymerase IV; Validated; Region: PRK02406 990288000423 DNA binding site [nucleotide binding] 990288000424 Transposase domain (DUF772); Region: DUF772; pfam05598 990288000425 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 990288000426 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 990288000427 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288000428 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 990288000429 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 990288000430 Coenzyme A binding pocket [chemical binding]; other site 990288000431 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 990288000432 conserved cys residue [active] 990288000433 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 990288000434 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 990288000435 classical (c) SDRs; Region: SDR_c; cd05233 990288000436 NAD(P) binding site [chemical binding]; other site 990288000437 active site 990288000438 SnoaL-like domain; Region: SnoaL_2; pfam12680 990288000439 VirB8 protein; Region: VirB8; cl01500 990288000440 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 990288000441 VirB7 interaction site; other site 990288000442 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 990288000443 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 990288000444 PemK-like protein; Region: PemK; pfam02452 990288000445 DNA topoisomerase III; Provisional; Region: PRK07726 990288000446 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 990288000447 active site 990288000448 putative interdomain interaction site [polypeptide binding]; other site 990288000449 putative metal-binding site [ion binding]; other site 990288000450 putative nucleotide binding site [chemical binding]; other site 990288000451 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 990288000452 domain I; other site 990288000453 DNA binding groove [nucleotide binding] 990288000454 phosphate binding site [ion binding]; other site 990288000455 domain II; other site 990288000456 domain III; other site 990288000457 nucleotide binding site [chemical binding]; other site 990288000458 catalytic site [active] 990288000459 domain IV; other site 990288000460 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 990288000461 N-acetyl-D-glucosamine binding site [chemical binding]; other site 990288000462 catalytic residue [active] 990288000463 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 990288000464 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 990288000465 Walker A motif; other site 990288000466 ATP binding site [chemical binding]; other site 990288000467 Walker B motif; other site 990288000468 Transposase domain (DUF772); Region: DUF772; pfam05598 990288000469 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288000470 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 990288000471 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288000472 Transposase domain (DUF772); Region: DUF772; pfam05598 990288000473 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288000474 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288000475 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288000476 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 990288000477 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 990288000478 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 990288000479 RNA dependent RNA polymerase; Region: RdRP_2; pfam00978 990288000480 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288000481 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 990288000482 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 990288000483 Transposase domain (DUF772); Region: DUF772; pfam05598 990288000484 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288000485 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 990288000486 PLD-like domain; Region: PLDc_2; pfam13091 990288000487 putative active site [active] 990288000488 catalytic site [active] 990288000489 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 990288000490 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 990288000491 tetramer (dimer of dimers) interface [polypeptide binding]; other site 990288000492 Transposase domain (DUF772); Region: DUF772; pfam05598 990288000493 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288000494 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288000495 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 990288000496 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 990288000497 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 990288000498 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 990288000499 cytochrome o ubiquinol oxidase, subunit I; Region: CyoB; TIGR02843 990288000500 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 990288000501 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 990288000502 Subunit I/III interface [polypeptide binding]; other site 990288000503 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 990288000504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288000505 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288000506 PilZ domain; Region: PilZ; pfam07238 990288000507 PAS domain; Region: PAS_9; pfam13426 990288000508 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 990288000509 putative active site [active] 990288000510 heme pocket [chemical binding]; other site 990288000511 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 990288000512 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288000513 metal binding site [ion binding]; metal-binding site 990288000514 active site 990288000515 I-site; other site 990288000516 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 990288000517 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 990288000518 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288000519 active site 990288000520 phosphorylation site [posttranslational modification] 990288000521 intermolecular recognition site; other site 990288000522 dimerization interface [polypeptide binding]; other site 990288000523 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 990288000524 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 990288000525 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 990288000526 putative binding surface; other site 990288000527 active site 990288000528 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 990288000529 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288000530 ATP binding site [chemical binding]; other site 990288000531 Mg2+ binding site [ion binding]; other site 990288000532 G-X-G motif; other site 990288000533 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 990288000534 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288000535 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 990288000536 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 990288000537 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 990288000538 dimer interface [polypeptide binding]; other site 990288000539 putative CheW interface [polypeptide binding]; other site 990288000540 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 990288000541 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 990288000542 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 990288000543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288000544 active site 990288000545 phosphorylation site [posttranslational modification] 990288000546 intermolecular recognition site; other site 990288000547 dimerization interface [polypeptide binding]; other site 990288000548 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 990288000549 PAS domain; Region: PAS_9; pfam13426 990288000550 putative active site [active] 990288000551 heme pocket [chemical binding]; other site 990288000552 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 990288000553 dimer interface [polypeptide binding]; other site 990288000554 putative CheW interface [polypeptide binding]; other site 990288000555 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 990288000556 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 990288000557 heme-binding site [chemical binding]; other site 990288000558 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 990288000559 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 990288000560 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 990288000561 active site 990288000562 DNA binding site [nucleotide binding] 990288000563 Int/Topo IB signature motif; other site 990288000564 Double zinc ribbon; Region: DZR; pfam12773 990288000565 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 990288000566 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288000567 Integrase core domain; Region: rve; pfam00665 990288000568 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288000569 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 990288000570 Walker A motif; other site 990288000571 ATP binding site [chemical binding]; other site 990288000572 Walker B motif; other site 990288000573 O-Antigen ligase; Region: Wzy_C; pfam04932 990288000574 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 990288000575 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 990288000576 Substrate binding site; other site 990288000577 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 990288000578 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 990288000579 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 990288000580 NADP-binding site; other site 990288000581 homotetramer interface [polypeptide binding]; other site 990288000582 substrate binding site [chemical binding]; other site 990288000583 homodimer interface [polypeptide binding]; other site 990288000584 active site 990288000585 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 990288000586 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 990288000587 NADP-binding site; other site 990288000588 homotetramer interface [polypeptide binding]; other site 990288000589 substrate binding site [chemical binding]; other site 990288000590 homodimer interface [polypeptide binding]; other site 990288000591 active site 990288000592 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 990288000593 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 990288000594 putative ADP-binding pocket [chemical binding]; other site 990288000595 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 990288000596 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 990288000597 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288000598 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288000599 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 990288000600 Transposase domain (DUF772); Region: DUF772; pfam05598 990288000601 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 990288000602 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288000603 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 990288000604 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 990288000605 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 990288000606 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 990288000607 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 990288000608 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 990288000609 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 990288000610 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 990288000611 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 990288000612 Walker A/P-loop; other site 990288000613 ATP binding site [chemical binding]; other site 990288000614 Q-loop/lid; other site 990288000615 ABC transporter signature motif; other site 990288000616 Walker B; other site 990288000617 D-loop; other site 990288000618 H-loop/switch region; other site 990288000619 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 990288000620 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 990288000621 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 990288000622 putative DNA binding site [nucleotide binding]; other site 990288000623 putative Zn2+ binding site [ion binding]; other site 990288000624 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 990288000625 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 990288000626 Probable Catalytic site; other site 990288000627 metal-binding site 990288000628 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 990288000629 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 990288000630 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 990288000631 Bacterial sugar transferase; Region: Bac_transf; pfam02397 990288000632 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 990288000633 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 990288000634 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 990288000635 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 990288000636 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 990288000637 DAK2 domain; Region: Dak2; cl03685 990288000638 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 990288000639 Dak1 domain; Region: Dak1; pfam02733 990288000640 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 990288000641 GAF domain; Region: GAF_2; pfam13185 990288000642 GAF domain; Region: GAF; pfam01590 990288000643 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 990288000644 PAS domain; Region: PAS_9; pfam13426 990288000645 putative active site [active] 990288000646 heme pocket [chemical binding]; other site 990288000647 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 990288000648 PAS domain; Region: PAS_9; pfam13426 990288000649 putative active site [active] 990288000650 heme pocket [chemical binding]; other site 990288000651 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 990288000652 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288000653 metal binding site [ion binding]; metal-binding site 990288000654 active site 990288000655 I-site; other site 990288000656 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 990288000657 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 990288000658 DNA repair protein RadA; Provisional; Region: PRK11823 990288000659 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 990288000660 Walker A motif/ATP binding site; other site 990288000661 ATP binding site [chemical binding]; other site 990288000662 Walker B motif; other site 990288000663 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 990288000664 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 990288000665 alanine racemase; Reviewed; Region: alr; PRK00053 990288000666 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 990288000667 catalytic residue [active] 990288000668 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 990288000669 replicative DNA helicase; Region: DnaB; TIGR00665 990288000670 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 990288000671 Walker A motif; other site 990288000672 ATP binding site [chemical binding]; other site 990288000673 Walker B motif; other site 990288000674 DNA binding loops [nucleotide binding] 990288000675 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 990288000676 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 990288000677 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 990288000678 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 990288000679 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 990288000680 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 990288000681 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 990288000682 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 990288000683 Amino acid permease; Region: AA_permease_2; pfam13520 990288000684 K+ potassium transporter; Region: K_trans; cl15781 990288000685 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 990288000686 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 990288000687 TRAM domain; Region: TRAM; pfam01938 990288000688 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 990288000689 S-adenosylmethionine binding site [chemical binding]; other site 990288000690 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 990288000691 cysteine synthase B; Region: cysM; TIGR01138 990288000692 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 990288000693 dimer interface [polypeptide binding]; other site 990288000694 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288000695 catalytic residue [active] 990288000696 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 990288000697 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 990288000698 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 990288000699 putative active site [active] 990288000700 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 990288000701 methionine sulfoxide reductase A; Provisional; Region: PRK14054 990288000702 methionine sulfoxide reductase B; Provisional; Region: PRK00222 990288000703 methionine sulfoxide reductase B; Provisional; Region: PRK05508 990288000704 GAF domain; Region: GAF; pfam01590 990288000705 GAF domain; Region: GAF_2; pfam13185 990288000706 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 990288000707 GAF domain; Region: GAF; pfam01590 990288000708 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 990288000709 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288000710 metal binding site [ion binding]; metal-binding site 990288000711 active site 990288000712 I-site; other site 990288000713 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 990288000714 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 990288000715 AAA domain; Region: AAA_30; pfam13604 990288000716 Family description; Region: UvrD_C_2; pfam13538 990288000717 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 990288000718 Part of AAA domain; Region: AAA_19; pfam13245 990288000719 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 990288000720 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 990288000721 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 990288000722 hypothetical protein; Provisional; Region: PRK05409 990288000723 response regulator GlrR; Provisional; Region: PRK15115 990288000724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288000725 active site 990288000726 phosphorylation site [posttranslational modification] 990288000727 intermolecular recognition site; other site 990288000728 dimerization interface [polypeptide binding]; other site 990288000729 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 990288000730 Walker A motif; other site 990288000731 ATP binding site [chemical binding]; other site 990288000732 Walker B motif; other site 990288000733 arginine finger; other site 990288000734 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 990288000735 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 990288000736 dimerization interface [polypeptide binding]; other site 990288000737 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 990288000738 dimer interface [polypeptide binding]; other site 990288000739 phosphorylation site [posttranslational modification] 990288000740 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288000741 ATP binding site [chemical binding]; other site 990288000742 Mg2+ binding site [ion binding]; other site 990288000743 G-X-G motif; other site 990288000744 dihydroorotase; Validated; Region: pyrC; PRK09357 990288000745 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 990288000746 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 990288000747 active site 990288000748 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 990288000749 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 990288000750 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 990288000751 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 990288000752 active site 990288000753 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 990288000754 hypothetical protein; Validated; Region: PRK00228 990288000755 glutathione synthetase; Provisional; Region: PRK05246 990288000756 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 990288000757 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 990288000758 Glutamate-cysteine ligase; Region: GshA; pfam08886 990288000759 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 990288000760 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_1; cd06112 990288000761 citrate synthase; Provisional; Region: PRK14036 990288000762 dimer interface [polypeptide binding]; other site 990288000763 active site 990288000764 citrylCoA binding site [chemical binding]; other site 990288000765 oxalacetate/citrate binding site [chemical binding]; other site 990288000766 coenzyme A binding site [chemical binding]; other site 990288000767 catalytic triad [active] 990288000768 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 990288000769 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 990288000770 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 990288000771 G1 box; other site 990288000772 GTP/Mg2+ binding site [chemical binding]; other site 990288000773 G2 box; other site 990288000774 Switch I region; other site 990288000775 G3 box; other site 990288000776 Switch II region; other site 990288000777 G4 box; other site 990288000778 G5 box; other site 990288000779 Nucleoside recognition; Region: Gate; pfam07670 990288000780 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 990288000781 Predicted membrane protein [Function unknown]; Region: COG3431 990288000782 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 990288000783 E3 interaction surface; other site 990288000784 lipoyl attachment site [posttranslational modification]; other site 990288000785 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 990288000786 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 990288000787 E3 interaction surface; other site 990288000788 lipoyl attachment site [posttranslational modification]; other site 990288000789 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 990288000790 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 990288000791 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 990288000792 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 990288000793 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 990288000794 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 990288000795 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 990288000796 alpha subunit interface [polypeptide binding]; other site 990288000797 TPP binding site [chemical binding]; other site 990288000798 heterodimer interface [polypeptide binding]; other site 990288000799 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 990288000800 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 990288000801 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 990288000802 tetramer interface [polypeptide binding]; other site 990288000803 TPP-binding site [chemical binding]; other site 990288000804 heterodimer interface [polypeptide binding]; other site 990288000805 phosphorylation loop region [posttranslational modification] 990288000806 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 990288000807 transmembrane helices; other site 990288000808 TrkA-C domain; Region: TrkA_C; pfam02080 990288000809 TrkA-C domain; Region: TrkA_C; pfam02080 990288000810 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 990288000811 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 990288000812 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 990288000813 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288000814 active site 990288000815 phosphorylation site [posttranslational modification] 990288000816 intermolecular recognition site; other site 990288000817 dimerization interface [polypeptide binding]; other site 990288000818 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 990288000819 DNA binding site [nucleotide binding] 990288000820 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 990288000821 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 990288000822 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 990288000823 Ligand Binding Site [chemical binding]; other site 990288000824 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 990288000825 GAF domain; Region: GAF_3; pfam13492 990288000826 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 990288000827 dimer interface [polypeptide binding]; other site 990288000828 phosphorylation site [posttranslational modification] 990288000829 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288000830 ATP binding site [chemical binding]; other site 990288000831 Mg2+ binding site [ion binding]; other site 990288000832 G-X-G motif; other site 990288000833 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 990288000834 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 990288000835 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 990288000836 Soluble P-type ATPase [General function prediction only]; Region: COG4087 990288000837 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 990288000838 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 990288000839 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 990288000840 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 990288000841 DNA photolyase; Region: DNA_photolyase; pfam00875 990288000842 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 990288000843 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 990288000844 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288000845 putative substrate translocation pore; other site 990288000846 EamA-like transporter family; Region: EamA; cl17759 990288000847 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 990288000848 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 990288000849 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 990288000850 DNA binding residues [nucleotide binding] 990288000851 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 990288000852 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 990288000853 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 990288000854 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 990288000855 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 990288000856 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 990288000857 G1 box; other site 990288000858 putative GEF interaction site [polypeptide binding]; other site 990288000859 GTP/Mg2+ binding site [chemical binding]; other site 990288000860 Switch I region; other site 990288000861 G2 box; other site 990288000862 G3 box; other site 990288000863 Switch II region; other site 990288000864 G4 box; other site 990288000865 G5 box; other site 990288000866 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 990288000867 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 990288000868 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 990288000869 S-adenosylmethionine binding site [chemical binding]; other site 990288000870 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 990288000871 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 990288000872 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cd08773 990288000873 DNA binding site [nucleotide binding] 990288000874 H2TH interface [polypeptide binding]; other site 990288000875 putative catalytic residues [active] 990288000876 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 990288000877 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 990288000878 active site residue [active] 990288000879 potential frameshift: common BLAST hit: gi|218666065|ref|YP_002424962.1| glutamine synthetase, type I 990288000880 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 990288000881 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 990288000882 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 990288000883 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 990288000884 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 990288000885 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 990288000886 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 990288000887 S-adenosylmethionine binding site [chemical binding]; other site 990288000888 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 990288000889 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 990288000890 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 990288000891 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 990288000892 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 990288000893 DNA binding residues [nucleotide binding] 990288000894 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cl00182 990288000895 aminotransferase; Validated; Region: PRK08175 990288000896 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 990288000897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288000898 homodimer interface [polypeptide binding]; other site 990288000899 catalytic residue [active] 990288000900 homoserine dehydrogenase; Provisional; Region: PRK06349 990288000901 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 990288000902 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 990288000903 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 990288000904 threonine synthase; Reviewed; Region: PRK06721 990288000905 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 990288000906 homodimer interface [polypeptide binding]; other site 990288000907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288000908 catalytic residue [active] 990288000909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 990288000910 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 990288000911 DHH family; Region: DHH; pfam01368 990288000912 peptide chain release factor 2; Validated; Region: prfB; PRK00578 990288000913 This domain is found in peptide chain release factors; Region: PCRF; smart00937 990288000914 RF-1 domain; Region: RF-1; pfam00472 990288000915 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 990288000916 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 990288000917 dimer interface [polypeptide binding]; other site 990288000918 putative anticodon binding site; other site 990288000919 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 990288000920 motif 1; other site 990288000921 active site 990288000922 motif 2; other site 990288000923 motif 3; other site 990288000924 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 990288000925 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 990288000926 FtsX-like permease family; Region: FtsX; pfam02687 990288000927 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 990288000928 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 990288000929 Walker A/P-loop; other site 990288000930 ATP binding site [chemical binding]; other site 990288000931 Q-loop/lid; other site 990288000932 ABC transporter signature motif; other site 990288000933 Walker B; other site 990288000934 D-loop; other site 990288000935 H-loop/switch region; other site 990288000936 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 990288000937 Competence protein; Region: Competence; pfam03772 990288000938 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 990288000939 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 990288000940 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 990288000941 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 990288000942 putative acyl-acceptor binding pocket; other site 990288000943 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 990288000944 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 990288000945 Trm112p-like protein; Region: Trm112p; cl01066 990288000946 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 990288000947 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 990288000948 Ligand binding site; other site 990288000949 oligomer interface; other site 990288000950 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 990288000951 dimer interface [polypeptide binding]; other site 990288000952 substrate binding site [chemical binding]; other site 990288000953 metal binding sites [ion binding]; metal-binding site 990288000954 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 990288000955 active site residue [active] 990288000956 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 990288000957 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 990288000958 substrate binding site [chemical binding]; other site 990288000959 ATP binding site [chemical binding]; other site 990288000960 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 990288000961 S-adenosylmethionine synthetase; Validated; Region: PRK05250 990288000962 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 990288000963 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 990288000964 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 990288000965 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 990288000966 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 990288000967 homotetramer interface [polypeptide binding]; other site 990288000968 ligand binding site [chemical binding]; other site 990288000969 catalytic site [active] 990288000970 NAD binding site [chemical binding]; other site 990288000971 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 990288000972 FAD binding site [chemical binding]; other site 990288000973 phosphoribulokinase; Provisional; Region: PRK15453 990288000974 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 990288000975 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 990288000976 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 990288000977 glycogen branching enzyme; Provisional; Region: PRK05402 990288000978 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 990288000979 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 990288000980 active site 990288000981 catalytic site [active] 990288000982 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 990288000983 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288000984 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288000985 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 990288000986 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 990288000987 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288000988 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 990288000989 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 990288000990 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 990288000991 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 990288000992 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 990288000993 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 990288000994 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 990288000995 metal binding site [ion binding]; metal-binding site 990288000996 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 990288000997 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 990288000998 substrate binding site [chemical binding]; other site 990288000999 glutamase interaction surface [polypeptide binding]; other site 990288001000 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 990288001001 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 990288001002 catalytic residues [active] 990288001003 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 990288001004 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 990288001005 putative active site [active] 990288001006 oxyanion strand; other site 990288001007 catalytic triad [active] 990288001008 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 990288001009 putative active site pocket [active] 990288001010 4-fold oligomerization interface [polypeptide binding]; other site 990288001011 metal binding residues [ion binding]; metal-binding site 990288001012 3-fold/trimer interface [polypeptide binding]; other site 990288001013 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 990288001014 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 990288001015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288001016 homodimer interface [polypeptide binding]; other site 990288001017 catalytic residue [active] 990288001018 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 990288001019 histidinol dehydrogenase; Region: hisD; TIGR00069 990288001020 NAD binding site [chemical binding]; other site 990288001021 dimerization interface [polypeptide binding]; other site 990288001022 product binding site; other site 990288001023 substrate binding site [chemical binding]; other site 990288001024 zinc binding site [ion binding]; other site 990288001025 catalytic residues [active] 990288001026 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 990288001027 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 990288001028 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 990288001029 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 990288001030 hinge; other site 990288001031 active site 990288001032 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 990288001033 putative GSH binding site [chemical binding]; other site 990288001034 catalytic residues [active] 990288001035 BolA-like protein; Region: BolA; cl00386 990288001036 ABC-2 type transporter; Region: ABC2_membrane; cl17235 990288001037 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 990288001038 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 990288001039 SurA N-terminal domain; Region: SurA_N; pfam09312 990288001040 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 990288001041 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 990288001042 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 990288001043 OstA-like protein; Region: OstA; cl00844 990288001044 Organic solvent tolerance protein; Region: OstA_C; pfam04453 990288001045 Phosphotransferase enzyme family; Region: APH; pfam01636 990288001046 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 990288001047 substrate binding site [chemical binding]; other site 990288001048 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 990288001049 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 990288001050 Substrate binding site; other site 990288001051 metal-binding site 990288001052 KpsF/GutQ family protein; Region: kpsF; TIGR00393 990288001053 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 990288001054 putative active site [active] 990288001055 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 990288001056 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 990288001057 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 990288001058 active site 990288001059 motif I; other site 990288001060 motif II; other site 990288001061 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 990288001062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 990288001063 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 990288001064 OstA-like protein; Region: OstA; pfam03968 990288001065 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 990288001066 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 990288001067 Walker A/P-loop; other site 990288001068 ATP binding site [chemical binding]; other site 990288001069 Q-loop/lid; other site 990288001070 ABC transporter signature motif; other site 990288001071 Walker B; other site 990288001072 D-loop; other site 990288001073 H-loop/switch region; other site 990288001074 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 990288001075 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 990288001076 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 990288001077 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 990288001078 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 990288001079 30S subunit binding site; other site 990288001080 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 990288001081 active site 990288001082 phosphorylation site [posttranslational modification] 990288001083 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 990288001084 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 990288001085 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 990288001086 Hpr binding site; other site 990288001087 active site 990288001088 homohexamer subunit interaction site [polypeptide binding]; other site 990288001089 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 990288001090 AAA domain; Region: AAA_18; pfam13238 990288001091 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 990288001092 active pocket/dimerization site; other site 990288001093 active site 990288001094 phosphorylation site [posttranslational modification] 990288001095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 990288001096 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 990288001097 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 990288001098 FIST C domain; Region: FIST_C; pfam10442 990288001099 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 990288001100 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 990288001101 minor groove reading motif; other site 990288001102 helix-hairpin-helix signature motif; other site 990288001103 substrate binding pocket [chemical binding]; other site 990288001104 active site 990288001105 glycogen synthase; Provisional; Region: glgA; PRK00654 990288001106 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 990288001107 ADP-binding pocket [chemical binding]; other site 990288001108 homodimer interface [polypeptide binding]; other site 990288001109 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 990288001110 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 990288001111 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 990288001112 NAD binding site [chemical binding]; other site 990288001113 substrate binding site [chemical binding]; other site 990288001114 homodimer interface [polypeptide binding]; other site 990288001115 active site 990288001116 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 990288001117 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 990288001118 NADP binding site [chemical binding]; other site 990288001119 active site 990288001120 putative substrate binding site [chemical binding]; other site 990288001121 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 990288001122 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 990288001123 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 990288001124 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 990288001125 substrate binding site; other site 990288001126 tetramer interface; other site 990288001127 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 990288001128 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 990288001129 active site 990288001130 tetramer interface; other site 990288001131 Protein of unknown function (DUF502); Region: DUF502; cl01107 990288001132 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 990288001133 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288001134 active site 990288001135 phosphorylation site [posttranslational modification] 990288001136 intermolecular recognition site; other site 990288001137 dimerization interface [polypeptide binding]; other site 990288001138 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 990288001139 Walker A motif; other site 990288001140 ATP binding site [chemical binding]; other site 990288001141 Walker B motif; other site 990288001142 arginine finger; other site 990288001143 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 990288001144 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 990288001145 HAMP domain; Region: HAMP; pfam00672 990288001146 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 990288001147 dimer interface [polypeptide binding]; other site 990288001148 phosphorylation site [posttranslational modification] 990288001149 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288001150 ATP binding site [chemical binding]; other site 990288001151 Mg2+ binding site [ion binding]; other site 990288001152 G-X-G motif; other site 990288001153 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 990288001154 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 990288001155 Walker A/P-loop; other site 990288001156 ATP binding site [chemical binding]; other site 990288001157 Q-loop/lid; other site 990288001158 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 990288001159 ABC transporter signature motif; other site 990288001160 Walker B; other site 990288001161 D-loop; other site 990288001162 H-loop/switch region; other site 990288001163 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 990288001164 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 990288001165 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 990288001166 regulatory protein interface [polypeptide binding]; other site 990288001167 active site 990288001168 regulatory phosphorylation site [posttranslational modification]; other site 990288001169 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 990288001170 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 990288001171 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 990288001172 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 990288001173 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 990288001174 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 990288001175 minor groove reading motif; other site 990288001176 helix-hairpin-helix signature motif; other site 990288001177 substrate binding pocket [chemical binding]; other site 990288001178 active site 990288001179 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 990288001180 DNA binding and oxoG recognition site [nucleotide binding] 990288001181 oxidative damage protection protein; Provisional; Region: PRK05408 990288001182 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 990288001183 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 990288001184 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 990288001185 active site 990288001186 Zn binding site [ion binding]; other site 990288001187 fumarate hydratase; Reviewed; Region: fumC; PRK00485 990288001188 Class II fumarases; Region: Fumarase_classII; cd01362 990288001189 active site 990288001190 tetramer interface [polypeptide binding]; other site 990288001191 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 990288001192 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 990288001193 Protein of unknown function (DUF805); Region: DUF805; pfam05656 990288001194 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 990288001195 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 990288001196 active site 990288001197 HIGH motif; other site 990288001198 KMSKS motif; other site 990288001199 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 990288001200 tRNA binding surface [nucleotide binding]; other site 990288001201 anticodon binding site; other site 990288001202 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 990288001203 dimer interface [polypeptide binding]; other site 990288001204 putative tRNA-binding site [nucleotide binding]; other site 990288001205 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 990288001206 proline aminopeptidase P II; Provisional; Region: PRK10879 990288001207 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 990288001208 active site 990288001209 Type III pantothenate kinase; Region: Pan_kinase; cl17198 990288001210 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 990288001211 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 990288001212 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 990288001213 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 990288001214 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 990288001215 putative catalytic cysteine [active] 990288001216 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 990288001217 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 990288001218 Lipopolysaccharide-assembly; Region: LptE; cl01125 990288001219 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 990288001220 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 990288001221 HIGH motif; other site 990288001222 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 990288001223 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 990288001224 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 990288001225 active site 990288001226 KMSKS motif; other site 990288001227 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 990288001228 tRNA binding surface [nucleotide binding]; other site 990288001229 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 990288001230 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 990288001231 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 990288001232 S-adenosylmethionine binding site [chemical binding]; other site 990288001233 integrase; Provisional; Region: int; PHA02601 990288001234 Transposase domain (DUF772); Region: DUF772; pfam05598 990288001235 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288001236 DDE superfamily endonuclease; Region: DDE_4; cl17710 990288001237 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 990288001238 active site 990288001239 DNA binding site [nucleotide binding] 990288001240 Int/Topo IB signature motif; other site 990288001241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 990288001242 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 990288001243 T5orf172 domain; Region: T5orf172; pfam10544 990288001244 DEAD-like helicases superfamily; Region: DEXDc; smart00487 990288001245 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 990288001246 ATP binding site [chemical binding]; other site 990288001247 putative Mg++ binding site [ion binding]; other site 990288001248 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 990288001249 putative active site [active] 990288001250 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 990288001251 potential frameshift: common BLAST hit: gi|296136013|ref|YP_003643255.1| DNA methylase 990288001252 Methyltransferase domain; Region: Methyltransf_26; pfam13659 990288001253 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 990288001254 putative active site [active] 990288001255 homotetrameric interface [polypeptide binding]; other site 990288001256 HTH-like domain; Region: HTH_21; pfam13276 990288001257 Integrase core domain; Region: rve; pfam00665 990288001258 Integrase core domain; Region: rve_3; cl15866 990288001259 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 990288001260 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 990288001261 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 990288001262 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 990288001263 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 990288001264 23S rRNA interface [nucleotide binding]; other site 990288001265 L3 interface [polypeptide binding]; other site 990288001266 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 990288001267 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 990288001268 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 990288001269 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 990288001270 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 990288001271 active site 990288001272 dimer interface [polypeptide binding]; other site 990288001273 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 990288001274 dimer interface [polypeptide binding]; other site 990288001275 active site 990288001276 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 990288001277 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 990288001278 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 990288001279 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 990288001280 Transglycosylase; Region: Transgly; pfam00912 990288001281 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 990288001282 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 990288001283 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 990288001284 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288001285 Outer membrane efflux protein; Region: OEP; pfam02321 990288001286 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 990288001287 dimer interface [polypeptide binding]; other site 990288001288 phosphorylation site [posttranslational modification] 990288001289 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288001290 ATP binding site [chemical binding]; other site 990288001291 Mg2+ binding site [ion binding]; other site 990288001292 G-X-G motif; other site 990288001293 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 990288001294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288001295 active site 990288001296 phosphorylation site [posttranslational modification] 990288001297 intermolecular recognition site; other site 990288001298 dimerization interface [polypeptide binding]; other site 990288001299 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 990288001300 DNA binding site [nucleotide binding] 990288001301 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 990288001302 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 990288001303 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 990288001304 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 990288001305 active site 990288001306 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 990288001307 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 990288001308 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 990288001309 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 990288001310 binding surface 990288001311 Tetratricopeptide repeat; Region: TPR_16; pfam13432 990288001312 TPR motif; other site 990288001313 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 990288001314 binding surface 990288001315 TPR motif; other site 990288001316 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 990288001317 binding surface 990288001318 TPR motif; other site 990288001319 TPR repeat; Region: TPR_11; pfam13414 990288001320 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 990288001321 binding surface 990288001322 TPR motif; other site 990288001323 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 990288001324 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 990288001325 tRNA; other site 990288001326 putative tRNA binding site [nucleotide binding]; other site 990288001327 putative NADP binding site [chemical binding]; other site 990288001328 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 990288001329 peptide chain release factor 1; Validated; Region: prfA; PRK00591 990288001330 This domain is found in peptide chain release factors; Region: PCRF; smart00937 990288001331 RF-1 domain; Region: RF-1; pfam00472 990288001332 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 990288001333 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 990288001334 S-adenosylmethionine binding site [chemical binding]; other site 990288001335 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 990288001336 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 990288001337 DNA binding site [nucleotide binding] 990288001338 catalytic residue [active] 990288001339 H2TH interface [polypeptide binding]; other site 990288001340 putative catalytic residues [active] 990288001341 turnover-facilitating residue; other site 990288001342 intercalation triad [nucleotide binding]; other site 990288001343 8OG recognition residue [nucleotide binding]; other site 990288001344 putative reading head residues; other site 990288001345 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 990288001346 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 990288001347 Dynamin family; Region: Dynamin_N; pfam00350 990288001348 G1 box; other site 990288001349 GTP/Mg2+ binding site [chemical binding]; other site 990288001350 G2 box; other site 990288001351 Switch I region; other site 990288001352 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 990288001353 G3 box; other site 990288001354 Switch II region; other site 990288001355 GTP/Mg2+ binding site [chemical binding]; other site 990288001356 G4 box; other site 990288001357 G5 box; other site 990288001358 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 990288001359 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 990288001360 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 990288001361 active site 990288001362 (T/H)XGH motif; other site 990288001363 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 990288001364 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 990288001365 S-adenosylmethionine binding site [chemical binding]; other site 990288001366 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 990288001367 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 990288001368 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 990288001369 P loop; other site 990288001370 GTP binding site [chemical binding]; other site 990288001371 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 990288001372 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288001373 Walker A/P-loop; other site 990288001374 ATP binding site [chemical binding]; other site 990288001375 Q-loop/lid; other site 990288001376 ABC transporter signature motif; other site 990288001377 Walker B; other site 990288001378 D-loop; other site 990288001379 H-loop/switch region; other site 990288001380 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 990288001381 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 990288001382 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 990288001383 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 990288001384 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 990288001385 DNA binding residues [nucleotide binding] 990288001386 DsrE/DsrF-like family; Region: DrsE; cl00672 990288001387 Mechanosensitive ion channel; Region: MS_channel; pfam00924 990288001388 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 990288001389 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 990288001390 Walker A motif; other site 990288001391 ATP binding site [chemical binding]; other site 990288001392 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 990288001393 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 990288001394 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 990288001395 active site 990288001396 HslU subunit interaction site [polypeptide binding]; other site 990288001397 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 990288001398 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 990288001399 active site 990288001400 DNA binding site [nucleotide binding] 990288001401 Int/Topo IB signature motif; other site 990288001402 Protein of unknown function, DUF484; Region: DUF484; cl17449 990288001403 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 990288001404 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 990288001405 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 990288001406 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 990288001407 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 990288001408 classical (c) SDRs; Region: SDR_c; cd05233 990288001409 NAD(P) binding site [chemical binding]; other site 990288001410 active site 990288001411 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 990288001412 PilZ domain; Region: PilZ; pfam07238 990288001413 Tetratricopeptide repeat; Region: TPR_12; pfam13424 990288001414 endo-1,4-D-glucanase; Provisional; Region: PRK11097 990288001415 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 990288001416 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 990288001417 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 990288001418 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 990288001419 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288001420 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288001421 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 990288001422 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 990288001423 DXD motif; other site 990288001424 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 990288001425 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 990288001426 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 990288001427 helicase 45; Provisional; Region: PTZ00424 990288001428 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 990288001429 ATP binding site [chemical binding]; other site 990288001430 Mg++ binding site [ion binding]; other site 990288001431 motif III; other site 990288001432 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 990288001433 nucleotide binding region [chemical binding]; other site 990288001434 ATP-binding site [chemical binding]; other site 990288001435 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 990288001436 putative RNA binding site [nucleotide binding]; other site 990288001437 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 990288001438 DNA-binding site [nucleotide binding]; DNA binding site 990288001439 RNA-binding motif; other site 990288001440 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 990288001441 putative transposase OrfB; Reviewed; Region: PHA02517 990288001442 Integrase core domain; Region: rve; pfam00665 990288001443 putative transposase OrfB; Reviewed; Region: PHA02517 990288001444 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288001445 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288001446 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288001447 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288001448 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 990288001449 putative active site [active] 990288001450 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 990288001451 HEAT repeats; Region: HEAT_2; pfam13646 990288001452 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 990288001453 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 990288001454 DXD motif; other site 990288001455 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 990288001456 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 990288001457 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 990288001458 Walker A motif; other site 990288001459 ATP binding site [chemical binding]; other site 990288001460 Walker B motif; other site 990288001461 arginine finger; other site 990288001462 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 990288001463 Winged helix-turn helix; Region: HTH_29; pfam13551 990288001464 Helix-turn-helix domain; Region: HTH_28; pfam13518 990288001465 Homeodomain-like domain; Region: HTH_32; pfam13565 990288001466 Winged helix-turn helix; Region: HTH_33; pfam13592 990288001467 DDE superfamily endonuclease; Region: DDE_3; pfam13358 990288001468 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 990288001469 primosome assembly protein PriA; Validated; Region: PRK05580 990288001470 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 990288001471 ATP binding site [chemical binding]; other site 990288001472 putative Mg++ binding site [ion binding]; other site 990288001473 helicase superfamily c-terminal domain; Region: HELICc; smart00490 990288001474 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 990288001475 UbiA prenyltransferase family; Region: UbiA; pfam01040 990288001476 Chorismate lyase; Region: Chor_lyase; cl01230 990288001477 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 990288001478 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 990288001479 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 990288001480 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 990288001481 ligand binding site; other site 990288001482 oligomer interface; other site 990288001483 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 990288001484 dimer interface [polypeptide binding]; other site 990288001485 N-terminal domain interface [polypeptide binding]; other site 990288001486 sulfate 1 binding site; other site 990288001487 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 990288001488 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 990288001489 putative active site [active] 990288001490 catalytic site [active] 990288001491 N-terminal catalytic domain of 4-alpha-glucanotransferase; glycoside hydrolase family 57 (GH57); Region: GH57N_TLGT_like; cd10793 990288001492 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 990288001493 active site 990288001494 catalytic site [active] 990288001495 homodimer interface [polypeptide binding]; other site 990288001496 Lid 1; other site 990288001497 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 990288001498 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 990288001499 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 990288001500 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 990288001501 nucleotide binding site [chemical binding]; other site 990288001502 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 990288001503 Protein of unknown function (DUF445); Region: DUF445; pfam04286 990288001504 hypothetical protein; Validated; Region: PRK00029 990288001505 Uncharacterized conserved protein [Function unknown]; Region: COG0397 990288001506 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 990288001507 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 990288001508 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 990288001509 FeS/SAM binding site; other site 990288001510 TRAM domain; Region: TRAM; pfam01938 990288001511 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 990288001512 PhoH-like protein; Region: PhoH; pfam02562 990288001513 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 990288001514 FOG: CBS domain [General function prediction only]; Region: COG0517 990288001515 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 990288001516 Transporter associated domain; Region: CorC_HlyC; smart01091 990288001517 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 990288001518 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 990288001519 putative active site [active] 990288001520 catalytic triad [active] 990288001521 putative dimer interface [polypeptide binding]; other site 990288001522 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 990288001523 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 990288001524 putative active site [active] 990288001525 catalytic triad [active] 990288001526 putative dimer interface [polypeptide binding]; other site 990288001527 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288001528 Protein of unknown function (DUF692); Region: DUF692; cl01263 990288001529 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288001530 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288001531 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 990288001532 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 990288001533 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 990288001534 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288001535 OsmC-like protein; Region: OsmC; pfam02566 990288001536 DsrE/DsrF-like family; Region: DrsE; cl00672 990288001537 Major Facilitator Superfamily; Region: MFS_1; pfam07690 990288001538 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288001539 putative substrate translocation pore; other site 990288001540 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288001541 putative substrate translocation pore; other site 990288001542 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 990288001543 dimerization interface [polypeptide binding]; other site 990288001544 putative DNA binding site [nucleotide binding]; other site 990288001545 putative Zn2+ binding site [ion binding]; other site 990288001546 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 990288001547 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288001548 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 990288001549 S-adenosylmethionine binding site [chemical binding]; other site 990288001550 Predicted membrane protein [Function unknown]; Region: COG3462 990288001551 Short C-terminal domain; Region: SHOCT; pfam09851 990288001552 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 990288001553 glutaredoxin 2; Provisional; Region: PRK10387 990288001554 C-terminal domain interface [polypeptide binding]; other site 990288001555 GSH binding site (G-site) [chemical binding]; other site 990288001556 dimer interface [polypeptide binding]; other site 990288001557 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 990288001558 dimer interface [polypeptide binding]; other site 990288001559 N-terminal domain interface [polypeptide binding]; other site 990288001560 substrate binding pocket (H-site) [chemical binding]; other site 990288001561 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 990288001562 dimerization interface [polypeptide binding]; other site 990288001563 putative DNA binding site [nucleotide binding]; other site 990288001564 putative Zn2+ binding site [ion binding]; other site 990288001565 Predicted permeases [General function prediction only]; Region: COG0701 990288001566 phosphoglucomutase; Region: PLN02307 990288001567 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 990288001568 substrate binding site [chemical binding]; other site 990288001569 dimer interface [polypeptide binding]; other site 990288001570 active site 990288001571 metal binding site [ion binding]; metal-binding site 990288001572 Precorrin-8X methylmutase; Region: CbiC; pfam02570 990288001573 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 990288001574 signal recognition particle protein; Provisional; Region: PRK10867 990288001575 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 990288001576 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 990288001577 P loop; other site 990288001578 GTP binding site [chemical binding]; other site 990288001579 Signal peptide binding domain; Region: SRP_SPB; pfam02978 990288001580 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 990288001581 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 990288001582 RimM N-terminal domain; Region: RimM; pfam01782 990288001583 PRC-barrel domain; Region: PRC; pfam05239 990288001584 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 990288001585 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 990288001586 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 990288001587 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 990288001588 DNA binding site [nucleotide binding] 990288001589 active site 990288001590 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 990288001591 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 990288001592 active site 990288001593 DNA binding site [nucleotide binding] 990288001594 Int/Topo IB signature motif; other site 990288001595 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 990288001596 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 990288001597 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 990288001598 protein binding site [polypeptide binding]; other site 990288001599 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 990288001600 protein binding site [polypeptide binding]; other site 990288001601 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 990288001602 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 990288001603 catalytic residues [active] 990288001604 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 990288001605 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 990288001606 dimer interface [polypeptide binding]; other site 990288001607 active site 990288001608 glycine-pyridoxal phosphate binding site [chemical binding]; other site 990288001609 folate binding site [chemical binding]; other site 990288001610 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 990288001611 ATP cone domain; Region: ATP-cone; pfam03477 990288001612 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 990288001613 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 990288001614 catalytic motif [active] 990288001615 Zn binding site [ion binding]; other site 990288001616 RibD C-terminal domain; Region: RibD_C; cl17279 990288001617 Lumazine binding domain; Region: Lum_binding; pfam00677 990288001618 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 990288001619 Lumazine binding domain; Region: Lum_binding; pfam00677 990288001620 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 990288001621 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 990288001622 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 990288001623 dimerization interface [polypeptide binding]; other site 990288001624 active site 990288001625 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 990288001626 homopentamer interface [polypeptide binding]; other site 990288001627 active site 990288001628 transcription antitermination factor NusB; Region: nusB; TIGR01951 990288001629 putative RNA binding site [nucleotide binding]; other site 990288001630 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 990288001631 Sel1 repeat; Region: Sel1; cl02723 990288001632 Sel1-like repeats; Region: SEL1; smart00671 990288001633 Sel1-like repeats; Region: SEL1; smart00671 990288001634 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 990288001635 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 990288001636 ABC1 family; Region: ABC1; cl17513 990288001637 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 990288001638 active site 990288001639 ATP binding site [chemical binding]; other site 990288001640 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 990288001641 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 990288001642 ligand binding site [chemical binding]; other site 990288001643 elongation factor Tu; Reviewed; Region: PRK00049 990288001644 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 990288001645 G1 box; other site 990288001646 GEF interaction site [polypeptide binding]; other site 990288001647 GTP/Mg2+ binding site [chemical binding]; other site 990288001648 Switch I region; other site 990288001649 G2 box; other site 990288001650 G3 box; other site 990288001651 Switch II region; other site 990288001652 G4 box; other site 990288001653 G5 box; other site 990288001654 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 990288001655 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 990288001656 Antibiotic Binding Site [chemical binding]; other site 990288001657 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 990288001658 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 990288001659 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 990288001660 putative homodimer interface [polypeptide binding]; other site 990288001661 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 990288001662 heterodimer interface [polypeptide binding]; other site 990288001663 homodimer interface [polypeptide binding]; other site 990288001664 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 990288001665 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 990288001666 23S rRNA interface [nucleotide binding]; other site 990288001667 L7/L12 interface [polypeptide binding]; other site 990288001668 putative thiostrepton binding site; other site 990288001669 L25 interface [polypeptide binding]; other site 990288001670 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 990288001671 mRNA/rRNA interface [nucleotide binding]; other site 990288001672 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 990288001673 23S rRNA interface [nucleotide binding]; other site 990288001674 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 990288001675 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 990288001676 core dimer interface [polypeptide binding]; other site 990288001677 peripheral dimer interface [polypeptide binding]; other site 990288001678 L10 interface [polypeptide binding]; other site 990288001679 L11 interface [polypeptide binding]; other site 990288001680 putative EF-Tu interaction site [polypeptide binding]; other site 990288001681 putative EF-G interaction site [polypeptide binding]; other site 990288001682 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 990288001683 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 990288001684 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 990288001685 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 990288001686 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 990288001687 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 990288001688 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 990288001689 RPB3 interaction site [polypeptide binding]; other site 990288001690 RPB1 interaction site [polypeptide binding]; other site 990288001691 RPB11 interaction site [polypeptide binding]; other site 990288001692 RPB10 interaction site [polypeptide binding]; other site 990288001693 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 990288001694 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 990288001695 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 990288001696 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 990288001697 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 990288001698 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 990288001699 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 990288001700 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 990288001701 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 990288001702 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 990288001703 DNA binding site [nucleotide binding] 990288001704 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 990288001705 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 990288001706 S17 interaction site [polypeptide binding]; other site 990288001707 S8 interaction site; other site 990288001708 16S rRNA interaction site [nucleotide binding]; other site 990288001709 streptomycin interaction site [chemical binding]; other site 990288001710 23S rRNA interaction site [nucleotide binding]; other site 990288001711 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 990288001712 30S ribosomal protein S7; Validated; Region: PRK05302 990288001713 elongation factor G; Reviewed; Region: PRK00007 990288001714 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 990288001715 G1 box; other site 990288001716 putative GEF interaction site [polypeptide binding]; other site 990288001717 GTP/Mg2+ binding site [chemical binding]; other site 990288001718 Switch I region; other site 990288001719 G2 box; other site 990288001720 G3 box; other site 990288001721 Switch II region; other site 990288001722 G4 box; other site 990288001723 G5 box; other site 990288001724 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 990288001725 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 990288001726 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 990288001727 elongation factor Tu; Reviewed; Region: PRK00049 990288001728 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 990288001729 G1 box; other site 990288001730 GEF interaction site [polypeptide binding]; other site 990288001731 GTP/Mg2+ binding site [chemical binding]; other site 990288001732 Switch I region; other site 990288001733 G2 box; other site 990288001734 G3 box; other site 990288001735 Switch II region; other site 990288001736 G4 box; other site 990288001737 G5 box; other site 990288001738 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 990288001739 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 990288001740 Antibiotic Binding Site [chemical binding]; other site 990288001741 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 990288001742 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 990288001743 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 990288001744 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 990288001745 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 990288001746 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 990288001747 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 990288001748 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 990288001749 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 990288001750 protein-rRNA interface [nucleotide binding]; other site 990288001751 putative translocon binding site; other site 990288001752 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 990288001753 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 990288001754 G-X-X-G motif; other site 990288001755 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 990288001756 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 990288001757 23S rRNA interface [nucleotide binding]; other site 990288001758 5S rRNA interface [nucleotide binding]; other site 990288001759 putative antibiotic binding site [chemical binding]; other site 990288001760 L25 interface [polypeptide binding]; other site 990288001761 L27 interface [polypeptide binding]; other site 990288001762 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 990288001763 putative translocon interaction site; other site 990288001764 23S rRNA interface [nucleotide binding]; other site 990288001765 signal recognition particle (SRP54) interaction site; other site 990288001766 L23 interface [polypeptide binding]; other site 990288001767 trigger factor interaction site; other site 990288001768 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 990288001769 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 990288001770 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 990288001771 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 990288001772 RNA binding site [nucleotide binding]; other site 990288001773 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 990288001774 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 990288001775 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 990288001776 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 990288001777 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 990288001778 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 990288001779 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 990288001780 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 990288001781 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 990288001782 5S rRNA interface [nucleotide binding]; other site 990288001783 23S rRNA interface [nucleotide binding]; other site 990288001784 L5 interface [polypeptide binding]; other site 990288001785 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 990288001786 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 990288001787 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 990288001788 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 990288001789 23S rRNA binding site [nucleotide binding]; other site 990288001790 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 990288001791 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 990288001792 SecY translocase; Region: SecY; pfam00344 990288001793 adenylate kinase; Reviewed; Region: adk; PRK00279 990288001794 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 990288001795 AMP-binding site [chemical binding]; other site 990288001796 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 990288001797 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 990288001798 rRNA binding site [nucleotide binding]; other site 990288001799 predicted 30S ribosome binding site; other site 990288001800 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 990288001801 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 990288001802 30S ribosomal protein S13; Region: bact_S13; TIGR03631 990288001803 30S ribosomal protein S11; Validated; Region: PRK05309 990288001804 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 990288001805 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 990288001806 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 990288001807 RNA binding surface [nucleotide binding]; other site 990288001808 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 990288001809 alphaNTD homodimer interface [polypeptide binding]; other site 990288001810 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 990288001811 alphaNTD - beta interaction site [polypeptide binding]; other site 990288001812 alphaNTD - beta' interaction site [polypeptide binding]; other site 990288001813 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 990288001814 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 990288001815 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 990288001816 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 990288001817 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 990288001818 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 990288001819 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 990288001820 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 990288001821 dimer interface [polypeptide binding]; other site 990288001822 ssDNA binding site [nucleotide binding]; other site 990288001823 tetramer (dimer of dimers) interface [polypeptide binding]; other site 990288001824 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 990288001825 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 990288001826 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 990288001827 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 990288001828 active site 990288001829 NTP binding site [chemical binding]; other site 990288001830 metal binding triad [ion binding]; metal-binding site 990288001831 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 990288001832 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 990288001833 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 990288001834 substrate binding site [chemical binding]; other site 990288001835 ligand binding site [chemical binding]; other site 990288001836 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 990288001837 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 990288001838 substrate binding site [chemical binding]; other site 990288001839 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 990288001840 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 990288001841 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 990288001842 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 990288001843 tetramer (dimer of dimers) interface [polypeptide binding]; other site 990288001844 active site 990288001845 dimer interface [polypeptide binding]; other site 990288001846 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 990288001847 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 990288001848 conserved cys residue [active] 990288001849 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 990288001850 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 990288001851 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 990288001852 cytochrome o ubiquinol oxidase, subunit I; Region: CyoB; TIGR02843 990288001853 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 990288001854 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 990288001855 Subunit I/III interface [polypeptide binding]; other site 990288001856 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 990288001857 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 990288001858 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288001859 Major Facilitator Superfamily; Region: MFS_1; pfam07690 990288001860 putative substrate translocation pore; other site 990288001861 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 990288001862 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 990288001863 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 990288001864 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 990288001865 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 990288001866 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 990288001867 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 990288001868 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 990288001869 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 990288001870 ATP-grasp domain; Region: ATP-grasp_4; cl17255 990288001871 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 990288001872 IMP binding site; other site 990288001873 dimer interface [polypeptide binding]; other site 990288001874 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 990288001875 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 990288001876 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 990288001877 catalytic site [active] 990288001878 subunit interface [polypeptide binding]; other site 990288001879 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 990288001880 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 990288001881 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 990288001882 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 990288001883 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 990288001884 substrate binding pocket [chemical binding]; other site 990288001885 chain length determination region; other site 990288001886 substrate-Mg2+ binding site; other site 990288001887 catalytic residues [active] 990288001888 aspartate-rich region 1; other site 990288001889 active site lid residues [active] 990288001890 aspartate-rich region 2; other site 990288001891 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 990288001892 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 990288001893 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 990288001894 ABC transporter ATPase component; Reviewed; Region: PRK11147 990288001895 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288001896 Walker A/P-loop; other site 990288001897 ATP binding site [chemical binding]; other site 990288001898 Q-loop/lid; other site 990288001899 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 990288001900 ABC transporter signature motif; other site 990288001901 Walker B; other site 990288001902 D-loop; other site 990288001903 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 990288001904 Tic20-like protein; Region: Tic20; pfam09685 990288001905 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 990288001906 Fe-S cluster binding site [ion binding]; other site 990288001907 active site 990288001908 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 990288001909 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 990288001910 putative NAD(P) binding site [chemical binding]; other site 990288001911 active site 990288001912 putative substrate binding site [chemical binding]; other site 990288001913 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 990288001914 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 990288001915 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 990288001916 catalytic site [active] 990288001917 putative active site [active] 990288001918 putative substrate binding site [chemical binding]; other site 990288001919 dimer interface [polypeptide binding]; other site 990288001920 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 990288001921 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288001922 active site 990288001923 phosphorylation site [posttranslational modification] 990288001924 intermolecular recognition site; other site 990288001925 dimerization interface [polypeptide binding]; other site 990288001926 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 990288001927 DNA binding site [nucleotide binding] 990288001928 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 990288001929 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 990288001930 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 990288001931 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 990288001932 Uncharacterized conserved protein [Function unknown]; Region: COG3391 990288001933 Phosphoesterase family; Region: Phosphoesterase; pfam04185 990288001934 Phosphoesterase family; Region: Phosphoesterase; pfam04185 990288001935 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 990288001936 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 990288001937 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 990288001938 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 990288001939 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288001940 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288001941 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 990288001942 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 990288001943 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 990288001944 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 990288001945 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 990288001946 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 990288001947 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 990288001948 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 990288001949 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 990288001950 quinone interaction residues [chemical binding]; other site 990288001951 active site 990288001952 catalytic residues [active] 990288001953 FMN binding site [chemical binding]; other site 990288001954 substrate binding site [chemical binding]; other site 990288001955 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 990288001956 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 990288001957 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 990288001958 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 990288001959 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 990288001960 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 990288001961 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 990288001962 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 990288001963 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 990288001964 purine monophosphate binding site [chemical binding]; other site 990288001965 dimer interface [polypeptide binding]; other site 990288001966 putative catalytic residues [active] 990288001967 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 990288001968 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 990288001969 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 990288001970 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 990288001971 dimer interface [polypeptide binding]; other site 990288001972 active site 990288001973 metal binding site [ion binding]; metal-binding site 990288001974 GTP-binding protein YchF; Reviewed; Region: PRK09601 990288001975 YchF GTPase; Region: YchF; cd01900 990288001976 G1 box; other site 990288001977 GTP/Mg2+ binding site [chemical binding]; other site 990288001978 Switch I region; other site 990288001979 G2 box; other site 990288001980 Switch II region; other site 990288001981 G3 box; other site 990288001982 G4 box; other site 990288001983 G5 box; other site 990288001984 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 990288001985 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 990288001986 putative active site [active] 990288001987 catalytic residue [active] 990288001988 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 990288001989 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 990288001990 5S rRNA interface [nucleotide binding]; other site 990288001991 CTC domain interface [polypeptide binding]; other site 990288001992 L16 interface [polypeptide binding]; other site 990288001993 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 990288001994 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 990288001995 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 990288001996 Cell division protein ZapA; Region: ZapA; cl01146 990288001997 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 990288001998 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 990288001999 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 990288002000 putative active site [active] 990288002001 metal binding site [ion binding]; metal-binding site 990288002002 homodimer binding site [polypeptide binding]; other site 990288002003 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 990288002004 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 990288002005 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 990288002006 Isochorismatase family; Region: Isochorismatase; pfam00857 990288002007 catalytic triad [active] 990288002008 conserved cis-peptide bond; other site 990288002009 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 990288002010 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 990288002011 S-adenosylmethionine binding site [chemical binding]; other site 990288002012 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 990288002013 mce related protein; Region: MCE; pfam02470 990288002014 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 990288002015 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 990288002016 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288002017 Outer membrane efflux protein; Region: OEP; pfam02321 990288002018 Outer membrane efflux protein; Region: OEP; pfam02321 990288002019 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 990288002020 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 990288002021 Ligand Binding Site [chemical binding]; other site 990288002022 prolyl-tRNA synthetase; Provisional; Region: PRK09194 990288002023 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 990288002024 dimer interface [polypeptide binding]; other site 990288002025 motif 1; other site 990288002026 active site 990288002027 motif 2; other site 990288002028 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 990288002029 putative deacylase active site [active] 990288002030 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 990288002031 active site 990288002032 motif 3; other site 990288002033 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 990288002034 anticodon binding site; other site 990288002035 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 990288002036 Ligand Binding Site [chemical binding]; other site 990288002037 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 990288002038 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 990288002039 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 990288002040 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 990288002041 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 990288002042 Amino acid permease; Region: AA_permease_2; pfam13520 990288002043 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 990288002044 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 990288002045 dimerization interface [polypeptide binding]; other site 990288002046 active site 990288002047 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 990288002048 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 990288002049 active site 990288002050 HIGH motif; other site 990288002051 nucleotide binding site [chemical binding]; other site 990288002052 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 990288002053 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 990288002054 active site 990288002055 KMSKS motif; other site 990288002056 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 990288002057 tRNA binding surface [nucleotide binding]; other site 990288002058 anticodon binding site; other site 990288002059 autotransport protein MisL; Provisional; Region: PRK15313 990288002060 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 990288002061 multifunctional aminopeptidase A; Provisional; Region: PRK00913 990288002062 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 990288002063 interface (dimer of trimers) [polypeptide binding]; other site 990288002064 Substrate-binding/catalytic site; other site 990288002065 Zn-binding sites [ion binding]; other site 990288002066 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 990288002067 Predicted permeases [General function prediction only]; Region: COG0795 990288002068 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 990288002069 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 990288002070 Dynamin family; Region: Dynamin_N; pfam00350 990288002071 G1 box; other site 990288002072 GTP/Mg2+ binding site [chemical binding]; other site 990288002073 G2 box; other site 990288002074 Switch I region; other site 990288002075 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 990288002076 G3 box; other site 990288002077 Switch II region; other site 990288002078 GTP/Mg2+ binding site [chemical binding]; other site 990288002079 G4 box; other site 990288002080 G5 box; other site 990288002081 EVE domain; Region: EVE; cl00728 990288002082 Frataxin-like domain; Region: Frataxin_Cyay; pfam01491 990288002083 putative iron binding site [ion binding]; other site 990288002084 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 990288002085 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 990288002086 ATP binding site [chemical binding]; other site 990288002087 putative Mg++ binding site [ion binding]; other site 990288002088 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 990288002089 nucleotide binding region [chemical binding]; other site 990288002090 ATP-binding site [chemical binding]; other site 990288002091 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 990288002092 HRDC domain; Region: HRDC; pfam00570 990288002093 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 990288002094 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 990288002095 active site 990288002096 metal binding site [ion binding]; metal-binding site 990288002097 DsrE/DsrF-like family; Region: DrsE; cl00672 990288002098 preprotein translocase subunit SecB; Validated; Region: PRK05751 990288002099 SecA binding site; other site 990288002100 Preprotein binding site; other site 990288002101 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 990288002102 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 990288002103 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 990288002104 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 990288002105 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288002106 ATP binding site [chemical binding]; other site 990288002107 Mg2+ binding site [ion binding]; other site 990288002108 G-X-G motif; other site 990288002109 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 990288002110 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288002111 active site 990288002112 phosphorylation site [posttranslational modification] 990288002113 intermolecular recognition site; other site 990288002114 dimerization interface [polypeptide binding]; other site 990288002115 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 990288002116 Walker A motif; other site 990288002117 ATP binding site [chemical binding]; other site 990288002118 Walker B motif; other site 990288002119 arginine finger; other site 990288002120 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 990288002121 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 990288002122 active site 990288002123 DNA binding site [nucleotide binding] 990288002124 Int/Topo IB signature motif; other site 990288002125 DNA polymerase type B, organellar and viral; Region: DNA_pol_B_2; pfam03175 990288002126 Fic/DOC family; Region: Fic; pfam02661 990288002127 HipA N-terminal domain; Region: Couple_hipA; pfam13657 990288002128 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 990288002129 HipA-like N-terminal domain; Region: HipA_N; pfam07805 990288002130 HipA-like C-terminal domain; Region: HipA_C; pfam07804 990288002131 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 990288002132 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 990288002133 Homeodomain-like domain; Region: HTH_32; pfam13565 990288002134 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 990288002135 Integrase core domain; Region: rve; pfam00665 990288002136 Integrase core domain; Region: rve_3; pfam13683 990288002137 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 990288002138 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 990288002139 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 990288002140 Walker A motif; other site 990288002141 ATP binding site [chemical binding]; other site 990288002142 Walker B motif; other site 990288002143 arginine finger; other site 990288002144 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 990288002145 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 990288002146 trimerization site [polypeptide binding]; other site 990288002147 active site 990288002148 HipA N-terminal domain; Region: Couple_hipA; cl11853 990288002149 HipA-like N-terminal domain; Region: HipA_N; pfam07805 990288002150 HipA-like C-terminal domain; Region: HipA_C; pfam07804 990288002151 PilZ domain; Region: PilZ; pfam07238 990288002152 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 990288002153 putative DNA binding site [nucleotide binding]; other site 990288002154 putative Zn2+ binding site [ion binding]; other site 990288002155 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 990288002156 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 990288002157 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 990288002158 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 990288002159 Probable Catalytic site; other site 990288002160 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 990288002161 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 990288002162 Transposase domain (DUF772); Region: DUF772; pfam05598 990288002163 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288002164 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 990288002165 Transposase domain (DUF772); Region: DUF772; pfam05598 990288002166 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288002167 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 990288002168 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288002169 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 990288002170 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 990288002171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288002172 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288002173 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 990288002174 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 990288002175 Methyltransferase domain; Region: Methyltransf_24; pfam13578 990288002176 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 990288002177 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 990288002178 Probable Catalytic site; other site 990288002179 metal-binding site 990288002180 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 990288002181 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 990288002182 Probable Catalytic site; other site 990288002183 metal-binding site 990288002184 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 990288002185 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 990288002186 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 990288002187 active site 990288002188 dimer interface [polypeptide binding]; other site 990288002189 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 990288002190 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 990288002191 Ligand Binding Site [chemical binding]; other site 990288002192 Molecular Tunnel; other site 990288002193 Transposase domain (DUF772); Region: DUF772; pfam05598 990288002194 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288002195 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 990288002196 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288002197 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 990288002198 Bacterial sugar transferase; Region: Bac_transf; pfam02397 990288002199 O-Antigen ligase; Region: Wzy_C; pfam04932 990288002200 PAS domain S-box; Region: sensory_box; TIGR00229 990288002201 PAS domain; Region: PAS; smart00091 990288002202 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 990288002203 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 990288002204 Walker A motif; other site 990288002205 ATP binding site [chemical binding]; other site 990288002206 Walker B motif; other site 990288002207 arginine finger; other site 990288002208 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 990288002209 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 990288002210 TPR motif; other site 990288002211 binding surface 990288002212 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 990288002213 Transposase domain (DUF772); Region: DUF772; pfam05598 990288002214 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288002215 DDE superfamily endonuclease; Region: DDE_4; cl17710 990288002216 potential frameshift: common BLAST hit: gi|220934912|ref|YP_002513811.1| acriflavin resistance protein 990288002217 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 990288002218 Protein export membrane protein; Region: SecD_SecF; cl14618 990288002219 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 990288002220 Protein export membrane protein; Region: SecD_SecF; cl14618 990288002221 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 990288002222 active site 990288002223 dimer interface [polypeptide binding]; other site 990288002224 motif 2; other site 990288002225 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288002226 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 990288002227 TPR motif; other site 990288002228 TPR repeat; Region: TPR_11; pfam13414 990288002229 binding surface 990288002230 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 990288002231 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 990288002232 Beta-Casp domain; Region: Beta-Casp; smart01027 990288002233 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 990288002234 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 990288002235 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 990288002236 Part of AAA domain; Region: AAA_19; pfam13245 990288002237 Family description; Region: UvrD_C_2; pfam13538 990288002238 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 990288002239 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 990288002240 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 990288002241 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 990288002242 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 990288002243 active site 990288002244 uracil binding [chemical binding]; other site 990288002245 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 990288002246 nudix motif; other site 990288002247 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 990288002248 putative active site [active] 990288002249 Ap4A binding site [chemical binding]; other site 990288002250 nudix motif; other site 990288002251 putative metal binding site [ion binding]; other site 990288002252 psiF repeat; Region: PsiF_repeat; pfam07769 990288002253 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 990288002254 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288002255 putative substrate translocation pore; other site 990288002256 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 990288002257 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 990288002258 catalytic residues [active] 990288002259 transcription termination factor Rho; Provisional; Region: rho; PRK09376 990288002260 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 990288002261 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 990288002262 RNA binding site [nucleotide binding]; other site 990288002263 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 990288002264 multimer interface [polypeptide binding]; other site 990288002265 Walker A motif; other site 990288002266 ATP binding site [chemical binding]; other site 990288002267 Walker B motif; other site 990288002268 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 990288002269 Malic enzyme, N-terminal domain; Region: malic; pfam00390 990288002270 Malic enzyme, NAD binding domain; Region: Malic_M; smart00919 990288002271 NAD(P) binding pocket [chemical binding]; other site 990288002272 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 990288002273 6-phosphogluconate dehydratase; Region: edd; TIGR01196 990288002274 Uncharacterized conserved protein [Function unknown]; Region: COG1432 990288002275 LabA_like proteins; Region: LabA; cd10911 990288002276 putative metal binding site [ion binding]; other site 990288002277 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 990288002278 RNA binding site [nucleotide binding]; other site 990288002279 N-acetylglutamate synthase; Validated; Region: PRK05279 990288002280 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 990288002281 putative feedback inhibition sensing region; other site 990288002282 putative nucleotide binding site [chemical binding]; other site 990288002283 putative substrate binding site [chemical binding]; other site 990288002284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 990288002285 Coenzyme A binding pocket [chemical binding]; other site 990288002286 BolA-like protein; Region: BolA; pfam01722 990288002287 YciI-like protein; Reviewed; Region: PRK11370 990288002288 intracellular septation protein A; Reviewed; Region: PRK00259 990288002289 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 990288002290 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 990288002291 Walker A motif; other site 990288002292 ATP binding site [chemical binding]; other site 990288002293 Walker B motif; other site 990288002294 arginine finger; other site 990288002295 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 990288002296 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 990288002297 active site 990288002298 dimerization interface [polypeptide binding]; other site 990288002299 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 990288002300 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 990288002301 serine O-acetyltransferase; Region: cysE; TIGR01172 990288002302 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 990288002303 trimer interface [polypeptide binding]; other site 990288002304 active site 990288002305 substrate binding site [chemical binding]; other site 990288002306 CoA binding site [chemical binding]; other site 990288002307 Transcriptional regulator; Region: Rrf2; cl17282 990288002308 Rrf2 family protein; Region: rrf2_super; TIGR00738 990288002309 cysteine desulfurase; Provisional; Region: PRK14012 990288002310 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 990288002311 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 990288002312 catalytic residue [active] 990288002313 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 990288002314 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 990288002315 trimerization site [polypeptide binding]; other site 990288002316 active site 990288002317 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 990288002318 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 990288002319 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 990288002320 chaperone protein HscA; Provisional; Region: hscA; PRK05183 990288002321 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 990288002322 nucleotide binding site [chemical binding]; other site 990288002323 putative NEF/HSP70 interaction site [polypeptide binding]; other site 990288002324 SBD interface [polypeptide binding]; other site 990288002325 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 990288002326 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 990288002327 catalytic loop [active] 990288002328 iron binding site [ion binding]; other site 990288002329 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 990288002330 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 990288002331 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 990288002332 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 990288002333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288002334 active site 990288002335 phosphorylation site [posttranslational modification] 990288002336 intermolecular recognition site; other site 990288002337 dimerization interface [polypeptide binding]; other site 990288002338 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 990288002339 DNA binding site [nucleotide binding] 990288002340 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 990288002341 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 990288002342 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 990288002343 putative active site [active] 990288002344 heme pocket [chemical binding]; other site 990288002345 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 990288002346 dimer interface [polypeptide binding]; other site 990288002347 phosphorylation site [posttranslational modification] 990288002348 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288002349 ATP binding site [chemical binding]; other site 990288002350 Mg2+ binding site [ion binding]; other site 990288002351 G-X-G motif; other site 990288002352 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 990288002353 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 990288002354 Walker A/P-loop; other site 990288002355 ATP binding site [chemical binding]; other site 990288002356 Q-loop/lid; other site 990288002357 ABC transporter signature motif; other site 990288002358 Walker B; other site 990288002359 D-loop; other site 990288002360 H-loop/switch region; other site 990288002361 transcriptional regulator PhoU; Provisional; Region: PRK11115 990288002362 PhoU domain; Region: PhoU; pfam01895 990288002363 PhoU domain; Region: PhoU; pfam01895 990288002364 exopolyphosphatase; Provisional; Region: PRK10854 990288002365 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 990288002366 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 990288002367 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 990288002368 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 990288002369 rRNA interaction site [nucleotide binding]; other site 990288002370 S8 interaction site; other site 990288002371 putative laminin-1 binding site; other site 990288002372 elongation factor Ts; Provisional; Region: tsf; PRK09377 990288002373 UBA/TS-N domain; Region: UBA; pfam00627 990288002374 Elongation factor TS; Region: EF_TS; pfam00889 990288002375 Elongation factor TS; Region: EF_TS; pfam00889 990288002376 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 990288002377 putative nucleotide binding site [chemical binding]; other site 990288002378 uridine monophosphate binding site [chemical binding]; other site 990288002379 homohexameric interface [polypeptide binding]; other site 990288002380 ribosome recycling factor; Reviewed; Region: frr; PRK00083 990288002381 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 990288002382 hinge region; other site 990288002383 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 990288002384 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 990288002385 catalytic residue [active] 990288002386 putative FPP diphosphate binding site; other site 990288002387 putative FPP binding hydrophobic cleft; other site 990288002388 dimer interface [polypeptide binding]; other site 990288002389 putative IPP diphosphate binding site; other site 990288002390 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 990288002391 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 990288002392 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 990288002393 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 990288002394 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 990288002395 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 990288002396 zinc metallopeptidase RseP; Provisional; Region: PRK10779 990288002397 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 990288002398 active site 990288002399 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 990288002400 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 990288002401 protein binding site [polypeptide binding]; other site 990288002402 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 990288002403 putative substrate binding region [chemical binding]; other site 990288002404 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 990288002405 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 990288002406 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 990288002407 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 990288002408 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 990288002409 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 990288002410 Surface antigen; Region: Bac_surface_Ag; pfam01103 990288002411 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 990288002412 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 990288002413 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 990288002414 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 990288002415 trimer interface [polypeptide binding]; other site 990288002416 active site 990288002417 UDP-GlcNAc binding site [chemical binding]; other site 990288002418 lipid binding site [chemical binding]; lipid-binding site 990288002419 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 990288002420 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 990288002421 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 990288002422 active site 990288002423 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 990288002424 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 990288002425 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 990288002426 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 990288002427 inhibitor-cofactor binding pocket; inhibition site 990288002428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288002429 catalytic residue [active] 990288002430 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 990288002431 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 990288002432 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 990288002433 RNA/DNA hybrid binding site [nucleotide binding]; other site 990288002434 active site 990288002435 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 990288002436 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 990288002437 putative active site [active] 990288002438 putative PHP Thumb interface [polypeptide binding]; other site 990288002439 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 990288002440 generic binding surface II; other site 990288002441 generic binding surface I; other site 990288002442 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 990288002443 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 990288002444 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 990288002445 Ligand Binding Site [chemical binding]; other site 990288002446 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 990288002447 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 990288002448 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 990288002449 active site 990288002450 FMN binding site [chemical binding]; other site 990288002451 substrate binding site [chemical binding]; other site 990288002452 putative catalytic residue [active] 990288002453 GH3 auxin-responsive promoter; Region: GH3; pfam03321 990288002454 Penicillin amidase; Region: Penicil_amidase; pfam01804 990288002455 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 990288002456 active site 990288002457 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 990288002458 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 990288002459 Sel1-like repeats; Region: SEL1; smart00671 990288002460 Sel1-like repeats; Region: SEL1; smart00671 990288002461 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 990288002462 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 990288002463 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288002464 Walker A/P-loop; other site 990288002465 ATP binding site [chemical binding]; other site 990288002466 Q-loop/lid; other site 990288002467 ABC transporter signature motif; other site 990288002468 Walker B; other site 990288002469 D-loop; other site 990288002470 H-loop/switch region; other site 990288002471 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 990288002472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 990288002473 NAD(P) binding site [chemical binding]; other site 990288002474 active site 990288002475 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 990288002476 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 990288002477 Cysteine-rich domain; Region: CCG; pfam02754 990288002478 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 990288002479 Ferritin-like domain; Region: Ferritin; pfam00210 990288002480 binuclear metal center [ion binding]; other site 990288002481 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 990288002482 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 990288002483 generic binding surface II; other site 990288002484 generic binding surface I; other site 990288002485 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 990288002486 catalytic residues [active] 990288002487 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 990288002488 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 990288002489 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 990288002490 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 990288002491 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 990288002492 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 990288002493 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 990288002494 N-acetyl-D-glucosamine binding site [chemical binding]; other site 990288002495 catalytic residue [active] 990288002496 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 990288002497 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 990288002498 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 990288002499 putative PBP binding regions; other site 990288002500 ABC-ATPase subunit interface; other site 990288002501 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 990288002502 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288002503 Walker A/P-loop; other site 990288002504 ATP binding site [chemical binding]; other site 990288002505 Q-loop/lid; other site 990288002506 ABC transporter signature motif; other site 990288002507 Walker B; other site 990288002508 D-loop; other site 990288002509 H-loop/switch region; other site 990288002510 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288002511 Major Facilitator Superfamily; Region: MFS_1; pfam07690 990288002512 putative substrate translocation pore; other site 990288002513 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 990288002514 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 990288002515 active site 990288002516 substrate binding site [chemical binding]; other site 990288002517 metal binding site [ion binding]; metal-binding site 990288002518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288002519 Major Facilitator Superfamily; Region: MFS_1; pfam07690 990288002520 putative substrate translocation pore; other site 990288002521 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 990288002522 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 990288002523 putative active site [active] 990288002524 MerC mercury resistance protein; Region: MerC; cl03934 990288002525 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 990288002526 tRNA dimethylallyltransferase; Region: PLN02748 990288002527 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288002528 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288002529 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288002530 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288002531 DsrE/DsrF-like family; Region: DrsE; cl00672 990288002532 Transposase domain (DUF772); Region: DUF772; pfam05598 990288002533 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288002534 DDE superfamily endonuclease; Region: DDE_4; cl17710 990288002535 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 990288002536 active site 990288002537 Trp docking motif [polypeptide binding]; other site 990288002538 PQQ-like domain; Region: PQQ_2; pfam13360 990288002539 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 990288002540 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 990288002541 tandem repeat interface [polypeptide binding]; other site 990288002542 oligomer interface [polypeptide binding]; other site 990288002543 active site residues [active] 990288002544 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 990288002545 MoaE interaction surface [polypeptide binding]; other site 990288002546 MoeB interaction surface [polypeptide binding]; other site 990288002547 thiocarboxylated glycine; other site 990288002548 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 990288002549 MoaE homodimer interface [polypeptide binding]; other site 990288002550 MoaD interaction [polypeptide binding]; other site 990288002551 active site residues [active] 990288002552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 990288002553 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 990288002554 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 990288002555 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 990288002556 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 990288002557 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 990288002558 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 990288002559 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 990288002560 lipoyl attachment site [posttranslational modification]; other site 990288002561 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 990288002562 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 990288002563 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 990288002564 catalytic residue [active] 990288002565 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 990288002566 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 990288002567 catalytic residue [active] 990288002568 MoxR-like ATPases [General function prediction only]; Region: COG0714 990288002569 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 990288002570 Walker A motif; other site 990288002571 ATP binding site [chemical binding]; other site 990288002572 Walker B motif; other site 990288002573 arginine finger; other site 990288002574 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 990288002575 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 990288002576 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 990288002577 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 990288002578 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 990288002579 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 990288002580 Walker A/P-loop; other site 990288002581 ATP binding site [chemical binding]; other site 990288002582 Q-loop/lid; other site 990288002583 ABC transporter signature motif; other site 990288002584 Walker B; other site 990288002585 D-loop; other site 990288002586 H-loop/switch region; other site 990288002587 Ferredoxin [Energy production and conversion]; Region: COG1146 990288002588 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 990288002589 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 990288002590 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 990288002591 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 990288002592 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 990288002593 dimer interface [polypeptide binding]; other site 990288002594 decamer (pentamer of dimers) interface [polypeptide binding]; other site 990288002595 catalytic triad [active] 990288002596 peroxidatic and resolving cysteines [active] 990288002597 Domain of unknown function (DUF202); Region: DUF202; cl09954 990288002598 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 990288002599 tRNA dihydrouridine synthase A; Region: yjbN; TIGR00742 990288002600 FMN binding site [chemical binding]; other site 990288002601 active site 990288002602 catalytic residues [active] 990288002603 substrate binding site [chemical binding]; other site 990288002604 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 990288002605 Transcriptional regulator [Transcription]; Region: LysR; COG0583 990288002606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 990288002607 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 990288002608 putative dimerization interface [polypeptide binding]; other site 990288002609 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 990288002610 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 990288002611 dimer interface [polypeptide binding]; other site 990288002612 catalytic residue [active] 990288002613 metal binding site [ion binding]; metal-binding site 990288002614 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 990288002615 multimerization interface [polypeptide binding]; other site 990288002616 Carboxysome shell peptide mid-region; Region: CsoS2_M; pfam12288 990288002617 Carboxysome Shell Carbonic Anhydrase; Region: CsoSCA; pfam08936 990288002618 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 990288002619 Hexamer/Pentamer interface [polypeptide binding]; other site 990288002620 central pore; other site 990288002621 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 990288002622 Hexamer/Pentamer interface [polypeptide binding]; other site 990288002623 central pore; other site 990288002624 Carboxysome Shell 1 (CsoS1); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CsoS1; cd07058 990288002625 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 990288002626 Hexamer interface [polypeptide binding]; other site 990288002627 Hexagonal pore residue; other site 990288002628 Hexagonal pore; other site 990288002629 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 990288002630 Carboxysome Shell 1 (CsoS1); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CsoS1; cd07058 990288002631 Hexamer interface [polypeptide binding]; other site 990288002632 Hexagonal pore residue; other site 990288002633 Hexagonal pore; other site 990288002634 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 990288002635 Ferritin-like domain; Region: Ferritin; pfam00210 990288002636 dinuclear metal binding motif [ion binding]; other site 990288002637 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cl00942 990288002638 DCoH dimer interaction site [polypeptide binding]; other site 990288002639 aromatic arch; other site 990288002640 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 990288002641 DCoH tetramer interaction site [polypeptide binding]; other site 990288002642 substrate binding site [chemical binding]; other site 990288002643 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 990288002644 ParA-like protein; Provisional; Region: PHA02518 990288002645 P-loop; other site 990288002646 Magnesium ion binding site [ion binding]; other site 990288002647 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 990288002648 metal ion-dependent adhesion site (MIDAS); other site 990288002649 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 990288002650 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 990288002651 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 990288002652 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 990288002653 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 990288002654 Nitrogen regulatory protein P-II; Region: P-II; smart00938 990288002655 MoxR-like ATPases [General function prediction only]; Region: COG0714 990288002656 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 990288002657 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 990288002658 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 990288002659 nudix motif; other site 990288002660 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 1; Region: BMC_like_1_repeat1; cd07051 990288002661 putative hexamer interface [polypeptide binding]; other site 990288002662 putative hexagonal pore; other site 990288002663 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 2; Region: BMC_like_1_repeat2; cd07052 990288002664 putative hexamer interface [polypeptide binding]; other site 990288002665 putative hexagonal pore; other site 990288002666 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 990288002667 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 990288002668 catalytic residues [active] 990288002669 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 990288002670 Proline dehydrogenase; Region: Pro_dh; cl03282 990288002671 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 990288002672 Glutamate binding site [chemical binding]; other site 990288002673 NAD binding site [chemical binding]; other site 990288002674 catalytic residues [active] 990288002675 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 990288002676 active site 990288002677 FMN binding site [chemical binding]; other site 990288002678 substrate binding site [chemical binding]; other site 990288002679 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 990288002680 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288002681 ATP binding site [chemical binding]; other site 990288002682 Mg2+ binding site [ion binding]; other site 990288002683 G-X-G motif; other site 990288002684 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 990288002685 dimerization interface [polypeptide binding]; other site 990288002686 putative DNA binding site [nucleotide binding]; other site 990288002687 putative Zn2+ binding site [ion binding]; other site 990288002688 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 990288002689 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 990288002690 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 990288002691 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 990288002692 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 990288002693 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 990288002694 ATP-grasp domain; Region: ATP-grasp; pfam02222 990288002695 aspartate aminotransferase; Provisional; Region: PRK05764 990288002696 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 990288002697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288002698 homodimer interface [polypeptide binding]; other site 990288002699 catalytic residue [active] 990288002700 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 990288002701 Uncharacterized conserved protein [Function unknown]; Region: COG0393 990288002702 Uncharacterized conserved protein [Function unknown]; Region: COG0393 990288002703 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 990288002704 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 990288002705 ligand binding site [chemical binding]; other site 990288002706 flexible hinge region; other site 990288002707 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 990288002708 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 990288002709 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 990288002710 FeS/SAM binding site; other site 990288002711 HemN C-terminal domain; Region: HemN_C; pfam06969 990288002712 Uncharacterized conserved protein [Function unknown]; Region: COG3461 990288002713 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 990288002714 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 990288002715 RNA binding surface [nucleotide binding]; other site 990288002716 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 990288002717 active site 990288002718 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288002719 Major Facilitator Superfamily; Region: MFS_1; pfam07690 990288002720 putative substrate translocation pore; other site 990288002721 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288002722 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 990288002723 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 990288002724 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 990288002725 Methyltransferase domain; Region: Methyltransf_31; pfam13847 990288002726 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 990288002727 S-adenosylmethionine binding site [chemical binding]; other site 990288002728 Protein of unknown function DUF45; Region: DUF45; pfam01863 990288002729 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 990288002730 active site 990288002731 substrate binding pocket [chemical binding]; other site 990288002732 dimer interface [polypeptide binding]; other site 990288002733 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_20; cd07254 990288002734 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 990288002735 putative metal binding site [ion binding]; other site 990288002736 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 990288002737 Low molecular weight phosphatase family; Region: LMWPc; cd00115 990288002738 active site 990288002739 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 990288002740 dimerization interface [polypeptide binding]; other site 990288002741 putative DNA binding site [nucleotide binding]; other site 990288002742 putative Zn2+ binding site [ion binding]; other site 990288002743 arsenical pump membrane protein; Provisional; Region: PRK15445 990288002744 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 990288002745 transmembrane helices; other site 990288002746 EamA-like transporter family; Region: EamA; pfam00892 990288002747 EamA-like transporter family; Region: EamA; pfam00892 990288002748 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 990288002749 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 990288002750 active site 990288002751 FMN binding site [chemical binding]; other site 990288002752 substrate binding site [chemical binding]; other site 990288002753 homotetramer interface [polypeptide binding]; other site 990288002754 catalytic residue [active] 990288002755 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 990288002756 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 990288002757 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 990288002758 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 990288002759 Helix-turn-helix domain; Region: HTH_28; pfam13518 990288002760 Winged helix-turn helix; Region: HTH_29; pfam13551 990288002761 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 990288002762 hydrophobic ligand binding site; other site 990288002763 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 990288002764 apolar tunnel; other site 990288002765 heme binding site [chemical binding]; other site 990288002766 dimerization interface [polypeptide binding]; other site 990288002767 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 990288002768 dimer interface [polypeptide binding]; other site 990288002769 FMN binding site [chemical binding]; other site 990288002770 NADPH bind site [chemical binding]; other site 990288002771 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 990288002772 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 990288002773 active site 990288002774 catalytic site [active] 990288002775 substrate binding site [chemical binding]; other site 990288002776 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 990288002777 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 990288002778 GIY-YIG motif/motif A; other site 990288002779 active site 990288002780 catalytic site [active] 990288002781 putative DNA binding site [nucleotide binding]; other site 990288002782 metal binding site [ion binding]; metal-binding site 990288002783 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 990288002784 Translocon-associated protein, delta subunit precursor (TRAP-delta); Region: TRAP-delta; pfam05404 990288002785 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288002786 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288002787 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 990288002788 AAA domain; Region: AAA_33; pfam13671 990288002789 ribonuclease R; Region: RNase_R; TIGR02063 990288002790 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 990288002791 RNB domain; Region: RNB; pfam00773 990288002792 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 990288002793 RNA binding site [nucleotide binding]; other site 990288002794 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 990288002795 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 990288002796 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 990288002797 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 990288002798 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 990288002799 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 990288002800 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 990288002801 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 990288002802 MPT binding site; other site 990288002803 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 990288002804 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 990288002805 active site 990288002806 substrate binding site [chemical binding]; other site 990288002807 cosubstrate binding site; other site 990288002808 catalytic site [active] 990288002809 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 990288002810 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 990288002811 dimerization interface [polypeptide binding]; other site 990288002812 putative ATP binding site [chemical binding]; other site 990288002813 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 990288002814 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 990288002815 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 990288002816 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 990288002817 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 990288002818 putative phosphate acyltransferase; Provisional; Region: PRK05331 990288002819 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 990288002820 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 990288002821 dimer interface [polypeptide binding]; other site 990288002822 active site 990288002823 CoA binding pocket [chemical binding]; other site 990288002824 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 990288002825 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 990288002826 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 990288002827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 990288002828 NAD(P) binding site [chemical binding]; other site 990288002829 active site 990288002830 acyl carrier protein; Provisional; Region: acpP; PRK00982 990288002831 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 990288002832 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 990288002833 dimer interface [polypeptide binding]; other site 990288002834 active site 990288002835 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 990288002836 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 990288002837 substrate-cofactor binding pocket; other site 990288002838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288002839 homodimer interface [polypeptide binding]; other site 990288002840 catalytic residue [active] 990288002841 YceG-like family; Region: YceG; pfam02618 990288002842 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 990288002843 dimerization interface [polypeptide binding]; other site 990288002844 thymidylate kinase; Validated; Region: tmk; PRK00698 990288002845 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 990288002846 TMP-binding site; other site 990288002847 ATP-binding site [chemical binding]; other site 990288002848 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 990288002849 PilZ domain; Region: PilZ; cl01260 990288002850 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 990288002851 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 990288002852 catalytic residues [active] 990288002853 Int/Topo IB signature motif; other site 990288002854 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 990288002855 Transposase, Mutator family; Region: Transposase_mut; pfam00872 990288002856 MULE transposase domain; Region: MULE; pfam10551 990288002857 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 990288002858 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 990288002859 Walker A motif; other site 990288002860 ATP binding site [chemical binding]; other site 990288002861 Walker B motif; other site 990288002862 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 990288002863 TrwC relaxase; Region: TrwC; pfam08751 990288002864 AAA domain; Region: AAA_30; pfam13604 990288002865 Family description; Region: UvrD_C_2; pfam13538 990288002866 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288002867 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288002868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288002869 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288002870 Toprim domain; Region: Toprim_3; pfam13362 990288002871 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 990288002872 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 990288002873 active site 990288002874 DNA binding site [nucleotide binding] 990288002875 Int/Topo IB signature motif; other site 990288002876 Transposase domain (DUF772); Region: DUF772; pfam05598 990288002877 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288002878 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 990288002879 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288002880 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 990288002881 putative dimerization interface [polypeptide binding]; other site 990288002882 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 990288002883 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 990288002884 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 990288002885 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 990288002886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 990288002887 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 990288002888 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 990288002889 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 990288002890 Y-family of DNA polymerases; Region: PolY; cl12025 990288002891 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 990288002892 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 990288002893 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 990288002894 active site 990288002895 Protein of unknown function (DUF962); Region: DUF962; pfam06127 990288002896 Transposase domain (DUF772); Region: DUF772; pfam05598 990288002897 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288002898 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 990288002899 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288002900 AMMECR1; Region: AMMECR1; pfam01871 990288002901 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 990288002902 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 990288002903 putative ligand binding pocket/active site [active] 990288002904 putative metal binding site [ion binding]; other site 990288002905 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 990288002906 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 990288002907 FeS/SAM binding site; other site 990288002908 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 990288002909 Domain interface; other site 990288002910 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 990288002911 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 990288002912 Alkylmercury lyase; Region: MerB; pfam03243 990288002913 putative mercuric reductase; Provisional; Region: PRK13748 990288002914 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 990288002915 metal-binding site [ion binding] 990288002916 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 990288002917 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 990288002918 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 990288002919 metal-binding site [ion binding] 990288002920 MerT mercuric transport protein; Region: MerT; cl03578 990288002921 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 990288002922 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 990288002923 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 990288002924 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 990288002925 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 990288002926 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288002927 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 990288002928 Walker A motif; other site 990288002929 ATP binding site [chemical binding]; other site 990288002930 Walker B motif; other site 990288002931 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288002932 Integrase core domain; Region: rve; pfam00665 990288002933 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 990288002934 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 990288002935 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288002936 DsrE/DsrF-like family; Region: DrsE; cl00672 990288002937 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 990288002938 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 990288002939 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 990288002940 hypothetical protein; Provisional; Region: PRK05409 990288002941 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 990288002942 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288002943 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288002944 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 990288002945 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 990288002946 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 990288002947 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 990288002948 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 990288002949 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 990288002950 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 990288002951 Walker A/P-loop; other site 990288002952 ATP binding site [chemical binding]; other site 990288002953 Q-loop/lid; other site 990288002954 ABC transporter signature motif; other site 990288002955 Walker B; other site 990288002956 D-loop; other site 990288002957 H-loop/switch region; other site 990288002958 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 990288002959 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 990288002960 Walker A/P-loop; other site 990288002961 ATP binding site [chemical binding]; other site 990288002962 Q-loop/lid; other site 990288002963 ABC transporter signature motif; other site 990288002964 Walker B; other site 990288002965 D-loop; other site 990288002966 H-loop/switch region; other site 990288002967 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 990288002968 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 990288002969 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288002970 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 990288002971 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 990288002972 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 990288002973 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288002974 Transposase, Mutator family; Region: Transposase_mut; pfam00872 990288002975 MULE transposase domain; Region: MULE; pfam10551 990288002976 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 990288002977 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 990288002978 putative ligand binding site [chemical binding]; other site 990288002979 putative NAD binding site [chemical binding]; other site 990288002980 catalytic site [active] 990288002981 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 990288002982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 990288002983 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 990288002984 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 990288002985 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 990288002986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 990288002987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 990288002988 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 990288002989 dimerization interface [polypeptide binding]; other site 990288002990 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 990288002991 putative active site [active] 990288002992 heme pocket [chemical binding]; other site 990288002993 PAS domain S-box; Region: sensory_box; TIGR00229 990288002994 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 990288002995 putative active site [active] 990288002996 heme pocket [chemical binding]; other site 990288002997 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 990288002998 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288002999 metal binding site [ion binding]; metal-binding site 990288003000 active site 990288003001 I-site; other site 990288003002 Uncharacterized conserved protein [Function unknown]; Region: COG2353 990288003003 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 990288003004 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 990288003005 Predicted transcriptional regulators [Transcription]; Region: COG1733 990288003006 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 990288003007 Protein of unknown function (DUF511); Region: DUF511; cl01114 990288003008 Protein of unknown function (DUF511); Region: DUF511; cl01114 990288003009 Transposase domain (DUF772); Region: DUF772; pfam05598 990288003010 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288003011 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288003012 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 990288003013 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 990288003014 Walker A motif; other site 990288003015 ATP binding site [chemical binding]; other site 990288003016 Walker B motif; other site 990288003017 arginine finger; other site 990288003018 Homeodomain-like domain; Region: HTH_32; pfam13565 990288003019 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 990288003020 Integrase core domain; Region: rve; pfam00665 990288003021 Integrase core domain; Region: rve_3; pfam13683 990288003022 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 990288003023 outer membrane porin, OprD family; Region: OprD; pfam03573 990288003024 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 990288003025 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 990288003026 YrhK-like protein; Region: YrhK; pfam14145 990288003027 Fic family protein [Function unknown]; Region: COG3177 990288003028 Fic/DOC family; Region: Fic; pfam02661 990288003029 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288003030 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288003031 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 990288003032 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 990288003033 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 990288003034 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 990288003035 ATP binding site [chemical binding]; other site 990288003036 putative Mg++ binding site [ion binding]; other site 990288003037 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 990288003038 nucleotide binding region [chemical binding]; other site 990288003039 ATP-binding site [chemical binding]; other site 990288003040 voltage-gated potassium channel; Provisional; Region: PRK10537 990288003041 Ion channel; Region: Ion_trans_2; pfam07885 990288003042 TrkA-N domain; Region: TrkA_N; pfam02254 990288003043 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 990288003044 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 990288003045 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 990288003046 G1 box; other site 990288003047 Walker A motif; other site 990288003048 ATP binding site [chemical binding]; other site 990288003049 GTP/Mg2+ binding site [chemical binding]; other site 990288003050 Walker B motif; other site 990288003051 Family description; Region: UvrD_C_2; pfam13538 990288003052 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 990288003053 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288003054 active site 990288003055 phosphorylation site [posttranslational modification] 990288003056 intermolecular recognition site; other site 990288003057 dimerization interface [polypeptide binding]; other site 990288003058 ANTAR domain; Region: ANTAR; pfam03861 990288003059 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 990288003060 active site 990288003061 SAM binding site [chemical binding]; other site 990288003062 homodimer interface [polypeptide binding]; other site 990288003063 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 990288003064 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 990288003065 [4Fe-4S] binding site [ion binding]; other site 990288003066 molybdopterin cofactor binding site; other site 990288003067 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 990288003068 molybdopterin cofactor binding site; other site 990288003069 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 990288003070 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 990288003071 iron-sulfur cluster [ion binding]; other site 990288003072 [2Fe-2S] cluster binding site [ion binding]; other site 990288003073 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 990288003074 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 990288003075 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 990288003076 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 990288003077 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 990288003078 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 990288003079 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288003080 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 990288003081 NMT1-like family; Region: NMT1_2; pfam13379 990288003082 Transposase domain (DUF772); Region: DUF772; pfam05598 990288003083 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288003084 DDE superfamily endonuclease; Region: DDE_4; cl17710 990288003085 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 990288003086 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 990288003087 HsdM N-terminal domain; Region: HsdM_N; pfam12161 990288003088 Methyltransferase domain; Region: Methyltransf_26; pfam13659 990288003089 T5orf172 domain; Region: T5orf172; pfam10544 990288003090 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 990288003091 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 990288003092 Dyggve-Melchior-Clausen syndrome protein; Region: Dymeclin; cl15483 990288003093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288003094 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288003095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288003096 Integrase core domain; Region: rve; pfam00665 990288003097 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288003098 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 990288003099 Walker A motif; other site 990288003100 ATP binding site [chemical binding]; other site 990288003101 Walker B motif; other site 990288003102 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 990288003103 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 990288003104 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 990288003105 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 990288003106 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 990288003107 ATP binding site [chemical binding]; other site 990288003108 putative Mg++ binding site [ion binding]; other site 990288003109 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 990288003110 PLD-like domain; Region: PLDc_2; pfam13091 990288003111 putative active site [active] 990288003112 catalytic site [active] 990288003113 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_2; cd09128 990288003114 PLD-like domain; Region: PLDc_2; pfam13091 990288003115 putative active site [active] 990288003116 putative catalytic site [active] 990288003117 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 990288003118 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 990288003119 putative active site [active] 990288003120 putative metal binding site [ion binding]; other site 990288003121 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 990288003122 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 990288003123 dimer interface [polypeptide binding]; other site 990288003124 ssDNA binding site [nucleotide binding]; other site 990288003125 tetramer (dimer of dimers) interface [polypeptide binding]; other site 990288003126 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 990288003127 Fe-S cluster binding site [ion binding]; other site 990288003128 active site 990288003129 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 990288003130 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 990288003131 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 990288003132 active site 990288003133 metal binding site [ion binding]; metal-binding site 990288003134 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 990288003135 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 990288003136 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 990288003137 S-adenosylmethionine binding site [chemical binding]; other site 990288003138 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 990288003139 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 990288003140 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 990288003141 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 990288003142 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 990288003143 ATP binding site [chemical binding]; other site 990288003144 Walker A motif; other site 990288003145 hexamer interface [polypeptide binding]; other site 990288003146 Walker B motif; other site 990288003147 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 990288003148 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 990288003149 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 990288003150 N-acetyl-D-glucosamine binding site [chemical binding]; other site 990288003151 catalytic residue [active] 990288003152 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 990288003153 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 990288003154 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 990288003155 Type II/IV secretion system protein; Region: T2SE; pfam00437 990288003156 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 990288003157 Walker A motif; other site 990288003158 ATP binding site [chemical binding]; other site 990288003159 Walker B motif; other site 990288003160 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 990288003161 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 990288003162 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 990288003163 Walker A motif; other site 990288003164 ATP binding site [chemical binding]; other site 990288003165 Walker B motif; other site 990288003166 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 990288003167 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 990288003168 HicB family; Region: HicB; pfam05534 990288003169 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 990288003170 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 990288003171 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 990288003172 Hint (Hedgehog/Intein) domain N-terminal region; Region: HintN; smart00306 990288003173 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 990288003174 protein-splicing catalytic site; other site 990288003175 thioester formation/cholesterol transfer; other site 990288003176 AAA-like domain; Region: AAA_10; pfam12846 990288003177 YcfA-like protein; Region: YcfA; pfam07927 990288003178 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 990288003179 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 990288003180 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 990288003181 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 990288003182 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 990288003183 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 990288003184 DNA methylase; Region: N6_N4_Mtase; cl17433 990288003185 DNA methylase; Region: N6_N4_Mtase; pfam01555 990288003186 DNA methylase; Region: N6_N4_Mtase; pfam01555 990288003187 Predicted ATPase [General function prediction only]; Region: COG5293 990288003188 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 990288003189 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 990288003190 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 990288003191 VirB8 protein; Region: VirB8; pfam04335 990288003192 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 990288003193 VirB7 interaction site; other site 990288003194 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 990288003195 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 990288003196 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 990288003197 P-loop; other site 990288003198 Magnesium ion binding site [ion binding]; other site 990288003199 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 990288003200 Magnesium ion binding site [ion binding]; other site 990288003201 ParB-like nuclease domain; Region: ParBc; pfam02195 990288003202 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 990288003203 non-specific DNA binding site [nucleotide binding]; other site 990288003204 salt bridge; other site 990288003205 sequence-specific DNA binding site [nucleotide binding]; other site 990288003206 AntA/AntB antirepressor; Region: AntA; pfam08346 990288003207 AntA/AntB antirepressor; Region: AntA; pfam08346 990288003208 T5orf172 domain; Region: T5orf172; pfam10544 990288003209 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 990288003210 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 990288003211 Walker A motif; other site 990288003212 ATP binding site [chemical binding]; other site 990288003213 Walker B motif; other site 990288003214 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; cl17512 990288003215 putative DNA binding surface [nucleotide binding]; other site 990288003216 DNA polymerase III subunit beta; Validated; Region: PRK05643 990288003217 dimer interface [polypeptide binding]; other site 990288003218 beta-clamp/clamp loader binding surface; other site 990288003219 beta-clamp/translesion DNA polymerase binding surface; other site 990288003220 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 990288003221 N-acetyl-D-glucosamine binding site [chemical binding]; other site 990288003222 catalytic residue [active] 990288003223 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 990288003224 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 990288003225 nucleotide binding region [chemical binding]; other site 990288003226 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; cl08294 990288003227 CRISPR/Cas system-associated RAMP superfamily protein Csf2; Region: Csf2_U; cl11864 990288003228 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 990288003229 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 990288003230 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 990288003231 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 990288003232 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288003233 DNA methylase; Region: N6_N4_Mtase; cl17433 990288003234 DNA methylase; Region: N6_N4_Mtase; cl17433 990288003235 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 990288003236 active site 990288003237 catalytic triad [active] 990288003238 oxyanion hole [active] 990288003239 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 990288003240 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 990288003241 DNA methylase; Region: N6_N4_Mtase; cl17433 990288003242 DNA methylase; Region: N6_N4_Mtase; cl17433 990288003243 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 990288003244 metal binding site 2 [ion binding]; metal-binding site 990288003245 metal binding site 1 [ion binding]; metal-binding site 990288003246 structural Zn2+ binding site [ion binding]; other site 990288003247 DNA methylase; Region: N6_N4_Mtase; cl17433 990288003248 Helicase associated domain; Region: HA; pfam03457 990288003249 MT-A70; Region: MT-A70; cl01947 990288003250 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 990288003251 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 990288003252 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 990288003253 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 990288003254 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 990288003255 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 990288003256 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 990288003257 cofactor binding site; other site 990288003258 DNA binding site [nucleotide binding] 990288003259 substrate interaction site [chemical binding]; other site 990288003260 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 990288003261 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 990288003262 DNA methylase; Region: N6_N4_Mtase; pfam01555 990288003263 DNA methylase; Region: N6_N4_Mtase; pfam01555 990288003264 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 990288003265 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 990288003266 sequence-specific DNA binding site [nucleotide binding]; other site 990288003267 salt bridge; other site 990288003268 Transposase; Region: DEDD_Tnp_IS110; pfam01548 990288003269 DNA topoisomerase III; Provisional; Region: PRK07726 990288003270 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 990288003271 active site 990288003272 putative interdomain interaction site [polypeptide binding]; other site 990288003273 putative metal-binding site [ion binding]; other site 990288003274 putative nucleotide binding site [chemical binding]; other site 990288003275 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 990288003276 domain I; other site 990288003277 DNA binding groove [nucleotide binding] 990288003278 phosphate binding site [ion binding]; other site 990288003279 domain II; other site 990288003280 domain III; other site 990288003281 nucleotide binding site [chemical binding]; other site 990288003282 catalytic site [active] 990288003283 domain IV; other site 990288003284 PIN domain of bacteriophage T3, T4 RNase H, T5-5'nuclease, and homologs; Region: PIN_T4-like; cd09860 990288003285 5'-3' exonuclease; Region: 53EXOc; smart00475 990288003286 active site 990288003287 metal binding site 1 [ion binding]; metal-binding site 990288003288 5' ssDNA interaction site; other site 990288003289 3' ssDNA interaction site; other site 990288003290 metal binding site 2 [ion binding]; metal-binding site 990288003291 H3TH domain of bacteriophage T3, T4 RNase H, T5-5' nucleases, and homologs; Region: H3TH_T4-like; cd09899 990288003292 DNA binding site [nucleotide binding] 990288003293 metal binding site [ion binding]; metal-binding site 990288003294 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 990288003295 IHF dimer interface [polypeptide binding]; other site 990288003296 IHF - DNA interface [nucleotide binding]; other site 990288003297 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 990288003298 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 990288003299 N-acetyl-D-glucosamine binding site [chemical binding]; other site 990288003300 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: Arch_glmU; TIGR03992 990288003301 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 990288003302 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 990288003303 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 990288003304 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 990288003305 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 990288003306 Loader and inhibitor of phage G40P; Region: Inhibitor_G39P; pfam11417 990288003307 ParB-like nuclease domain; Region: ParB; smart00470 990288003308 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 990288003309 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 990288003310 salt bridge; other site 990288003311 non-specific DNA binding site [nucleotide binding]; other site 990288003312 sequence-specific DNA binding site [nucleotide binding]; other site 990288003313 RecT family; Region: RecT; cl04285 990288003314 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 990288003315 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 990288003316 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 990288003317 P22-like integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial and phage integrases, including those similar to phage P22-like integrases, DLP12 and APSE-1; Region: INT_P22_C; cd01192 990288003318 Int/Topo IB signature motif; other site 990288003319 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 990288003320 metal binding site 2 [ion binding]; metal-binding site 990288003321 putative DNA binding helix; other site 990288003322 metal binding site 1 [ion binding]; metal-binding site 990288003323 structural Zn2+ binding site [ion binding]; other site 990288003324 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 990288003325 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 990288003326 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 990288003327 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 990288003328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 990288003329 Family of unknown function (DUF490); Region: DUF490; pfam04357 990288003330 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 990288003331 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 990288003332 Surface antigen; Region: Bac_surface_Ag; pfam01103 990288003333 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 990288003334 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 990288003335 Walker A motif; other site 990288003336 ATP binding site [chemical binding]; other site 990288003337 Walker B motif; other site 990288003338 arginine finger; other site 990288003339 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 990288003340 hypothetical protein; Validated; Region: PRK00153 990288003341 recombination protein RecR; Reviewed; Region: recR; PRK00076 990288003342 RecR protein; Region: RecR; pfam02132 990288003343 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 990288003344 putative active site [active] 990288003345 putative metal-binding site [ion binding]; other site 990288003346 tetramer interface [polypeptide binding]; other site 990288003347 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 990288003348 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 990288003349 putative substrate binding site [chemical binding]; other site 990288003350 putative ATP binding site [chemical binding]; other site 990288003351 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 990288003352 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 990288003353 inhibitor-cofactor binding pocket; inhibition site 990288003354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288003355 catalytic residue [active] 990288003356 FOG: CBS domain [General function prediction only]; Region: COG0517 990288003357 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 990288003358 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 990288003359 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 990288003360 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288003361 ATP binding site [chemical binding]; other site 990288003362 Mg2+ binding site [ion binding]; other site 990288003363 G-X-G motif; other site 990288003364 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 990288003365 ATP binding site [chemical binding]; other site 990288003366 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 990288003367 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 990288003368 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 990288003369 V4R domain; Region: V4R; cl15268 990288003370 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 990288003371 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 990288003372 Na binding site [ion binding]; other site 990288003373 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 990288003374 heme-binding site [chemical binding]; other site 990288003375 threonine dehydratase; Reviewed; Region: PRK09224 990288003376 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 990288003377 tetramer interface [polypeptide binding]; other site 990288003378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288003379 catalytic residue [active] 990288003380 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 990288003381 putative Ile/Val binding site [chemical binding]; other site 990288003382 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 990288003383 putative Ile/Val binding site [chemical binding]; other site 990288003384 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 990288003385 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 990288003386 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 990288003387 MG2 domain; Region: A2M_N; pfam01835 990288003388 Alpha-2-macroglobulin family; Region: A2M; pfam00207 990288003389 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 990288003390 surface patch; other site 990288003391 thioester region; other site 990288003392 specificity defining residues; other site 990288003393 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 990288003394 Transglycosylase; Region: Transgly; pfam00912 990288003395 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 990288003396 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 990288003397 propionate/acetate kinase; Provisional; Region: PRK12379 990288003398 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 990288003399 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 990288003400 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 990288003401 E3 interaction surface; other site 990288003402 lipoyl attachment site [posttranslational modification]; other site 990288003403 e3 binding domain; Region: E3_binding; pfam02817 990288003404 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 990288003405 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 990288003406 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 990288003407 alpha subunit interface [polypeptide binding]; other site 990288003408 TPP binding site [chemical binding]; other site 990288003409 heterodimer interface [polypeptide binding]; other site 990288003410 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 990288003411 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 990288003412 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 990288003413 tetramer interface [polypeptide binding]; other site 990288003414 TPP-binding site [chemical binding]; other site 990288003415 heterodimer interface [polypeptide binding]; other site 990288003416 phosphorylation loop region [posttranslational modification] 990288003417 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 990288003418 phosphoglyceromutase; Provisional; Region: PRK05434 990288003419 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 990288003420 phosphoenolpyruvate synthase; Validated; Region: PRK06464 990288003421 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 990288003422 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 990288003423 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 990288003424 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 990288003425 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 990288003426 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 990288003427 Sporulation related domain; Region: SPOR; pfam05036 990288003428 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 990288003429 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 990288003430 metal binding site [ion binding]; metal-binding site 990288003431 dimer interface [polypeptide binding]; other site 990288003432 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 990288003433 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 990288003434 trimer interface [polypeptide binding]; other site 990288003435 active site 990288003436 substrate binding site [chemical binding]; other site 990288003437 CoA binding site [chemical binding]; other site 990288003438 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 990288003439 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 990288003440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288003441 homodimer interface [polypeptide binding]; other site 990288003442 catalytic residue [active] 990288003443 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 990288003444 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 990288003445 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 990288003446 S-adenosylmethionine binding site [chemical binding]; other site 990288003447 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 990288003448 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 990288003449 active site 990288003450 putative substrate binding pocket [chemical binding]; other site 990288003451 murein hydrolase B; Provisional; Region: PRK10760; cl17906 990288003452 Transglycosylase SLT domain; Region: SLT_2; pfam13406 990288003453 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 990288003454 NlpC/P60 family; Region: NLPC_P60; pfam00877 990288003455 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 990288003456 hypothetical protein; Provisional; Region: PRK10621 990288003457 Pirin-related protein [General function prediction only]; Region: COG1741 990288003458 Pirin; Region: Pirin; pfam02678 990288003459 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 990288003460 Transposase domain (DUF772); Region: DUF772; pfam05598 990288003461 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 990288003462 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 990288003463 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288003464 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 990288003465 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 990288003466 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 990288003467 Uncharacterized conserved protein [Function unknown]; Region: COG3391 990288003468 Phosphoesterase family; Region: Phosphoesterase; pfam04185 990288003469 benzoate transport; Region: 2A0115; TIGR00895 990288003470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288003471 putative substrate translocation pore; other site 990288003472 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288003473 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 990288003474 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 990288003475 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 990288003476 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 990288003477 putative active site [active] 990288003478 putative metal binding site [ion binding]; other site 990288003479 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 990288003480 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 990288003481 DNA binding site [nucleotide binding] 990288003482 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 990288003483 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 990288003484 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 990288003485 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 990288003486 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 990288003487 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 990288003488 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 990288003489 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 990288003490 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 990288003491 dimer interface [polypeptide binding]; other site 990288003492 conserved gate region; other site 990288003493 putative PBP binding loops; other site 990288003494 ABC-ATPase subunit interface; other site 990288003495 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 990288003496 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 990288003497 Walker A/P-loop; other site 990288003498 ATP binding site [chemical binding]; other site 990288003499 Q-loop/lid; other site 990288003500 ABC transporter signature motif; other site 990288003501 Walker B; other site 990288003502 D-loop; other site 990288003503 H-loop/switch region; other site 990288003504 Predicted membrane protein [Function unknown]; Region: COG4280 990288003505 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cl00208 990288003506 CAS motifs; other site 990288003507 active site 990288003508 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 990288003509 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 990288003510 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288003511 multicopper oxidase; Provisional; Region: PRK10965 990288003512 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 990288003513 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 990288003514 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 990288003515 active site 990288003516 multimer interface [polypeptide binding]; other site 990288003517 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 990288003518 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 990288003519 FeS/SAM binding site; other site 990288003520 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 990288003521 binding surface 990288003522 TPR motif; other site 990288003523 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 990288003524 non-specific DNA binding site [nucleotide binding]; other site 990288003525 salt bridge; other site 990288003526 sequence-specific DNA binding site [nucleotide binding]; other site 990288003527 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 990288003528 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 990288003529 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 990288003530 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 990288003531 histidyl-tRNA synthetase; Region: hisS; TIGR00442 990288003532 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 990288003533 dimer interface [polypeptide binding]; other site 990288003534 motif 1; other site 990288003535 active site 990288003536 motif 2; other site 990288003537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 990288003538 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 990288003539 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 990288003540 Trp docking motif [polypeptide binding]; other site 990288003541 active site 990288003542 GTP-binding protein Der; Reviewed; Region: PRK00093 990288003543 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 990288003544 G1 box; other site 990288003545 GTP/Mg2+ binding site [chemical binding]; other site 990288003546 Switch I region; other site 990288003547 G2 box; other site 990288003548 Switch II region; other site 990288003549 G3 box; other site 990288003550 G4 box; other site 990288003551 G5 box; other site 990288003552 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 990288003553 G1 box; other site 990288003554 GTP/Mg2+ binding site [chemical binding]; other site 990288003555 Switch I region; other site 990288003556 G2 box; other site 990288003557 G3 box; other site 990288003558 Switch II region; other site 990288003559 G4 box; other site 990288003560 G5 box; other site 990288003561 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 990288003562 catalytic core [active] 990288003563 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 990288003564 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 990288003565 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cd00321 990288003566 Moco binding site; other site 990288003567 metal coordination site [ion binding]; other site 990288003568 Transposase domain (DUF772); Region: DUF772; pfam05598 990288003569 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288003570 DDE superfamily endonuclease; Region: DDE_4; cl17710 990288003571 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288003572 PBP superfamily domain; Region: PBP_like_2; cl17296 990288003573 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 990288003574 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 990288003575 dimer interface [polypeptide binding]; other site 990288003576 conserved gate region; other site 990288003577 putative PBP binding loops; other site 990288003578 ABC-ATPase subunit interface; other site 990288003579 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 990288003580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 990288003581 dimer interface [polypeptide binding]; other site 990288003582 conserved gate region; other site 990288003583 putative PBP binding loops; other site 990288003584 ABC-ATPase subunit interface; other site 990288003585 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 990288003586 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 990288003587 putative RNA binding site [nucleotide binding]; other site 990288003588 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 990288003589 S-adenosylmethionine binding site [chemical binding]; other site 990288003590 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 990288003591 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 990288003592 Uncharacterized conserved protein [Function unknown]; Region: COG3391 990288003593 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 990288003594 Phosphoesterase family; Region: Phosphoesterase; pfam04185 990288003595 DNA gyrase subunit A; Validated; Region: PRK05560 990288003596 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 990288003597 CAP-like domain; other site 990288003598 active site 990288003599 primary dimer interface [polypeptide binding]; other site 990288003600 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 990288003601 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 990288003602 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 990288003603 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 990288003604 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 990288003605 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 990288003606 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 990288003607 homodimer interface [polypeptide binding]; other site 990288003608 substrate-cofactor binding pocket; other site 990288003609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288003610 catalytic residue [active] 990288003611 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 990288003612 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 990288003613 Prephenate dehydratase; Region: PDT; pfam00800 990288003614 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 990288003615 putative L-Phe binding site [chemical binding]; other site 990288003616 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 990288003617 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 990288003618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288003619 homodimer interface [polypeptide binding]; other site 990288003620 catalytic residue [active] 990288003621 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 990288003622 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 990288003623 prephenate dehydrogenase; Validated; Region: PRK08507 990288003624 Prephenate dehydrogenase; Region: PDH; pfam02153 990288003625 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 990288003626 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 990288003627 hinge; other site 990288003628 active site 990288003629 cytidylate kinase; Provisional; Region: cmk; PRK00023 990288003630 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 990288003631 CMP-binding site; other site 990288003632 The sites determining sugar specificity; other site 990288003633 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 990288003634 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 990288003635 RNA binding site [nucleotide binding]; other site 990288003636 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 990288003637 RNA binding site [nucleotide binding]; other site 990288003638 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 990288003639 RNA binding site [nucleotide binding]; other site 990288003640 S1_RPS1_repeat_ec4: 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_ec4; cd05689 990288003641 RNA binding site [nucleotide binding]; other site 990288003642 S1_RPS1_repeat_ec5: 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_ec5; cd05690 990288003643 RNA binding site [nucleotide binding]; other site 990288003644 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 990288003645 RNA binding site [nucleotide binding]; other site 990288003646 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 990288003647 IHF - DNA interface [nucleotide binding]; other site 990288003648 IHF dimer interface [polypeptide binding]; other site 990288003649 tetratricopeptide repeat protein; Provisional; Region: PRK11788 990288003650 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 990288003651 active site 990288003652 dimer interface [polypeptide binding]; other site 990288003653 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 990288003654 active site 990288003655 trigger factor; Provisional; Region: tig; PRK01490 990288003656 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 990288003657 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 990288003658 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 990288003659 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 990288003660 oligomer interface [polypeptide binding]; other site 990288003661 active site residues [active] 990288003662 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 990288003663 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 990288003664 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 990288003665 Walker A motif; other site 990288003666 ATP binding site [chemical binding]; other site 990288003667 Walker B motif; other site 990288003668 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 990288003669 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 990288003670 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 990288003671 Walker A motif; other site 990288003672 ATP binding site [chemical binding]; other site 990288003673 Walker B motif; other site 990288003674 arginine finger; other site 990288003675 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 990288003676 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 990288003677 IHF dimer interface [polypeptide binding]; other site 990288003678 IHF - DNA interface [nucleotide binding]; other site 990288003679 SurA N-terminal domain; Region: SurA_N_3; pfam13624 990288003680 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 990288003681 PilZ domain; Region: PilZ; pfam07238 990288003682 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 990288003683 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 990288003684 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 990288003685 PAS domain; Region: PAS_9; pfam13426 990288003686 putative active site [active] 990288003687 heme pocket [chemical binding]; other site 990288003688 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 990288003689 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288003690 metal binding site [ion binding]; metal-binding site 990288003691 active site 990288003692 I-site; other site 990288003693 Helix-turn-helix domain; Region: HTH_17; cl17695 990288003694 Sel1 repeat; Region: Sel1; cl02723 990288003695 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 990288003696 GAF domain; Region: GAF; pfam01590 990288003697 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 990288003698 PAS domain; Region: PAS_9; pfam13426 990288003699 putative active site [active] 990288003700 heme pocket [chemical binding]; other site 990288003701 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 990288003702 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288003703 metal binding site [ion binding]; metal-binding site 990288003704 active site 990288003705 I-site; other site 990288003706 PilZ domain; Region: PilZ; pfam07238 990288003707 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 990288003708 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 990288003709 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 990288003710 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 990288003711 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 990288003712 Roadblock/LC7 domain [Function unknown]; Region: COG4831 990288003713 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 990288003714 dimer interface [polypeptide binding]; other site 990288003715 catalytic triad [active] 990288003716 peroxidatic and resolving cysteines [active] 990288003717 Transglycosylase; Region: Transgly; pfam00912 990288003718 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 990288003719 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 990288003720 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 990288003721 active site 990288003722 HIGH motif; other site 990288003723 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 990288003724 active site 990288003725 KMSKS motif; other site 990288003726 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 990288003727 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 990288003728 active site 990288003729 HIGH motif; other site 990288003730 nucleotide binding site [chemical binding]; other site 990288003731 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 990288003732 KMSKS motif; other site 990288003733 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 990288003734 tRNA binding surface [nucleotide binding]; other site 990288003735 anticodon binding site; other site 990288003736 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 990288003737 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 990288003738 homodimer interface [polypeptide binding]; other site 990288003739 oligonucleotide binding site [chemical binding]; other site 990288003740 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 990288003741 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 990288003742 RNA binding surface [nucleotide binding]; other site 990288003743 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 990288003744 active site 990288003745 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 990288003746 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 990288003747 motif II; other site 990288003748 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 990288003749 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288003750 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 990288003751 Walker A/P-loop; other site 990288003752 ATP binding site [chemical binding]; other site 990288003753 Q-loop/lid; other site 990288003754 ABC transporter signature motif; other site 990288003755 Walker B; other site 990288003756 D-loop; other site 990288003757 H-loop/switch region; other site 990288003758 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288003759 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288003760 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 990288003761 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 990288003762 Domain interface; other site 990288003763 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 990288003764 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 990288003765 glucose-1-dehydrogenase; Provisional; Region: PRK08936 990288003766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 990288003767 NAD(P) binding site [chemical binding]; other site 990288003768 active site 990288003769 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 990288003770 tandem repeat interface [polypeptide binding]; other site 990288003771 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 990288003772 oligomer interface [polypeptide binding]; other site 990288003773 active site residues [active] 990288003774 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 990288003775 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 990288003776 tandem repeat interface [polypeptide binding]; other site 990288003777 oligomer interface [polypeptide binding]; other site 990288003778 active site residues [active] 990288003779 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 990288003780 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 990288003781 active site 990288003782 catalytic tetrad [active] 990288003783 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 990288003784 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 990288003785 dimer interface [polypeptide binding]; other site 990288003786 putative CheW interface [polypeptide binding]; other site 990288003787 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 990288003788 Response regulator receiver domain; Region: Response_reg; pfam00072 990288003789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288003790 active site 990288003791 phosphorylation site [posttranslational modification] 990288003792 intermolecular recognition site; other site 990288003793 dimerization interface [polypeptide binding]; other site 990288003794 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 990288003795 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 990288003796 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 990288003797 putative binding surface; other site 990288003798 active site 990288003799 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 990288003800 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 990288003801 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288003802 ATP binding site [chemical binding]; other site 990288003803 Mg2+ binding site [ion binding]; other site 990288003804 G-X-G motif; other site 990288003805 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 990288003806 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 990288003807 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288003808 active site 990288003809 phosphorylation site [posttranslational modification] 990288003810 intermolecular recognition site; other site 990288003811 dimerization interface [polypeptide binding]; other site 990288003812 Sporulation related domain; Region: SPOR; pfam05036 990288003813 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 990288003814 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 990288003815 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 990288003816 ligand binding site [chemical binding]; other site 990288003817 PilZ domain; Region: PilZ; pfam07238 990288003818 FliW protein; Region: FliW; cl00740 990288003819 Global regulator protein family; Region: CsrA; pfam02599 990288003820 FlgN protein; Region: FlgN; pfam05130 990288003821 SAF-like; Region: SAF_2; pfam13144 990288003822 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 990288003823 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 990288003824 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 990288003825 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 990288003826 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 990288003827 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 990288003828 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 990288003829 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 990288003830 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 990288003831 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 990288003832 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 990288003833 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 990288003834 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 990288003835 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 990288003836 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 990288003837 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 990288003838 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 990288003839 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 990288003840 Flagellar L-ring protein; Region: FlgH; pfam02107 990288003841 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 990288003842 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 990288003843 Rod binding protein; Region: Rod-binding; cl01626 990288003844 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 990288003845 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 990288003846 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 990288003847 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 990288003848 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 990288003849 Methyltransferase domain; Region: Methyltransf_23; pfam13489 990288003850 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 990288003851 S-adenosylmethionine binding site [chemical binding]; other site 990288003852 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288003853 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288003854 Rhamnan synthesis protein F; Region: RgpF; pfam05045 990288003855 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 990288003856 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 990288003857 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 990288003858 Probable Catalytic site; other site 990288003859 metal-binding site 990288003860 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 990288003861 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 990288003862 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 990288003863 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 990288003864 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 990288003865 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 990288003866 Flagellar protein FliS; Region: FliS; cl00654 990288003867 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 990288003868 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 990288003869 Walker A motif; other site 990288003870 ATP binding site [chemical binding]; other site 990288003871 Walker B motif; other site 990288003872 arginine finger; other site 990288003873 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 990288003874 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 990288003875 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288003876 ATP binding site [chemical binding]; other site 990288003877 Mg2+ binding site [ion binding]; other site 990288003878 G-X-G motif; other site 990288003879 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 990288003880 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288003881 active site 990288003882 phosphorylation site [posttranslational modification] 990288003883 intermolecular recognition site; other site 990288003884 dimerization interface [polypeptide binding]; other site 990288003885 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 990288003886 Walker A motif; other site 990288003887 ATP binding site [chemical binding]; other site 990288003888 Walker B motif; other site 990288003889 arginine finger; other site 990288003890 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 990288003891 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 990288003892 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 990288003893 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 990288003894 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 990288003895 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 990288003896 MgtE intracellular N domain; Region: MgtE_N; cl15244 990288003897 FliG C-terminal domain; Region: FliG_C; pfam01706 990288003898 flagellar assembly protein H; Validated; Region: fliH; PRK05687 990288003899 Flagellar assembly protein FliH; Region: FliH; pfam02108 990288003900 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 990288003901 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 990288003902 Walker A motif/ATP binding site; other site 990288003903 Walker B motif; other site 990288003904 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 990288003905 Flagellar FliJ protein; Region: FliJ; pfam02050 990288003906 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 990288003907 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 990288003908 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 990288003909 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 990288003910 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 990288003911 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 990288003912 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 990288003913 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 990288003914 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 990288003915 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 990288003916 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 990288003917 FHIPEP family; Region: FHIPEP; pfam00771 990288003918 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 990288003919 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 990288003920 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 990288003921 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 990288003922 P-loop; other site 990288003923 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 990288003924 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 990288003925 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 990288003926 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 990288003927 DNA binding residues [nucleotide binding] 990288003928 flagellar motor protein; Reviewed; Region: motC; PRK09109 990288003929 flagellar motor protein MotA; Validated; Region: PRK08124 990288003930 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 990288003931 MutS domain I; Region: MutS_I; pfam01624 990288003932 MutS domain II; Region: MutS_II; pfam05188 990288003933 MutS domain III; Region: MutS_III; pfam05192 990288003934 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 990288003935 Walker A/P-loop; other site 990288003936 ATP binding site [chemical binding]; other site 990288003937 Q-loop/lid; other site 990288003938 ABC transporter signature motif; other site 990288003939 Walker B; other site 990288003940 D-loop; other site 990288003941 H-loop/switch region; other site 990288003942 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 990288003943 YccA-like proteins; Region: YccA_like; cd10433 990288003944 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 990288003945 exodeoxyribonuclease X; Provisional; Region: PRK07983 990288003946 active site 990288003947 catalytic site [active] 990288003948 substrate binding site [chemical binding]; other site 990288003949 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 990288003950 intersubunit interface [polypeptide binding]; other site 990288003951 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 990288003952 active site 990288003953 Zn2+ binding site [ion binding]; other site 990288003954 Smr domain; Region: Smr; pfam01713 990288003955 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 990288003956 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 990288003957 FAD binding domain; Region: FAD_binding_4; pfam01565 990288003958 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 990288003959 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 990288003960 Cysteine-rich domain; Region: CCG; pfam02754 990288003961 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 990288003962 Pantoate-beta-alanine ligase; Region: PanC; cd00560 990288003963 pantoate--beta-alanine ligase; Region: panC; TIGR00018 990288003964 active site 990288003965 ATP-binding site [chemical binding]; other site 990288003966 pantoate-binding site; other site 990288003967 HXXH motif; other site 990288003968 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 990288003969 active site 990288003970 oligomerization interface [polypeptide binding]; other site 990288003971 metal binding site [ion binding]; metal-binding site 990288003972 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 990288003973 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 990288003974 active site 990288003975 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 990288003976 catalytic center binding site [active] 990288003977 ATP binding site [chemical binding]; other site 990288003978 poly(A) polymerase; Region: pcnB; TIGR01942 990288003979 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 990288003980 active site 990288003981 NTP binding site [chemical binding]; other site 990288003982 metal binding triad [ion binding]; metal-binding site 990288003983 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 990288003984 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 990288003985 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 990288003986 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 990288003987 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 990288003988 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 990288003989 active site 990288003990 GMP synthase; Reviewed; Region: guaA; PRK00074 990288003991 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 990288003992 AMP/PPi binding site [chemical binding]; other site 990288003993 candidate oxyanion hole; other site 990288003994 catalytic triad [active] 990288003995 potential glutamine specificity residues [chemical binding]; other site 990288003996 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 990288003997 ATP Binding subdomain [chemical binding]; other site 990288003998 Ligand Binding sites [chemical binding]; other site 990288003999 Dimerization subdomain; other site 990288004000 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 990288004001 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 990288004002 ligand binding site [chemical binding]; other site 990288004003 flexible hinge region; other site 990288004004 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 990288004005 putative switch regulator; other site 990288004006 non-specific DNA interactions [nucleotide binding]; other site 990288004007 DNA binding site [nucleotide binding] 990288004008 sequence specific DNA binding site [nucleotide binding]; other site 990288004009 putative cAMP binding site [chemical binding]; other site 990288004010 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 990288004011 heme-binding site [chemical binding]; other site 990288004012 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 990288004013 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 990288004014 catalytic loop [active] 990288004015 iron binding site [ion binding]; other site 990288004016 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 990288004017 FAD binding pocket [chemical binding]; other site 990288004018 FAD binding motif [chemical binding]; other site 990288004019 phosphate binding motif [ion binding]; other site 990288004020 beta-alpha-beta structure motif; other site 990288004021 NAD binding pocket [chemical binding]; other site 990288004022 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 990288004023 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 990288004024 minor groove reading motif; other site 990288004025 helix-hairpin-helix signature motif; other site 990288004026 substrate binding pocket [chemical binding]; other site 990288004027 active site 990288004028 Hemerythrin-like domain; Region: Hr-like; cd12108 990288004029 Fe binding site [ion binding]; other site 990288004030 Uncharacterized conserved protein [Function unknown]; Region: COG3189 990288004031 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 990288004032 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288004033 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 990288004034 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 990288004035 Cl- selectivity filter; other site 990288004036 Cl- binding residues [ion binding]; other site 990288004037 pore gating glutamate residue; other site 990288004038 dimer interface [polypeptide binding]; other site 990288004039 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 990288004040 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 990288004041 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 990288004042 Cl- selectivity filter; other site 990288004043 Cl- binding residues [ion binding]; other site 990288004044 pore gating glutamate residue; other site 990288004045 dimer interface [polypeptide binding]; other site 990288004046 Major Facilitator Superfamily; Region: MFS_1; pfam07690 990288004047 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288004048 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 990288004049 dimerization interface [polypeptide binding]; other site 990288004050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288004051 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288004052 acetyl-CoA synthetase; Provisional; Region: PRK00174 990288004053 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 990288004054 active site 990288004055 CoA binding site [chemical binding]; other site 990288004056 acyl-activating enzyme (AAE) consensus motif; other site 990288004057 AMP binding site [chemical binding]; other site 990288004058 acetate binding site [chemical binding]; other site 990288004059 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 990288004060 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 990288004061 pyruvate kinase; Provisional; Region: PRK05826 990288004062 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 990288004063 domain interfaces; other site 990288004064 active site 990288004065 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 990288004066 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 990288004067 putative active site; other site 990288004068 catalytic residue [active] 990288004069 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 990288004070 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 990288004071 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 990288004072 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 990288004073 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 990288004074 putative substrate binding site [chemical binding]; other site 990288004075 putative ATP binding site [chemical binding]; other site 990288004076 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 990288004077 potential frameshift: common BLAST hit: gi|198282301|ref|YP_002218622.1| carbohydrate-selective porin OprB 990288004078 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 990288004079 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 990288004080 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 990288004081 Cl binding site [ion binding]; other site 990288004082 oligomer interface [polypeptide binding]; other site 990288004083 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 990288004084 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 990288004085 Cl binding site [ion binding]; other site 990288004086 oligomer interface [polypeptide binding]; other site 990288004087 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 990288004088 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 990288004089 Cl binding site [ion binding]; other site 990288004090 oligomer interface [polypeptide binding]; other site 990288004091 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 990288004092 oligomer interface [polypeptide binding]; other site 990288004093 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 990288004094 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 990288004095 oligomer interface [polypeptide binding]; other site 990288004096 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 990288004097 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 990288004098 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 990288004099 MgtC family; Region: MgtC; pfam02308 990288004100 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 990288004101 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 990288004102 non-specific DNA binding site [nucleotide binding]; other site 990288004103 sequence-specific DNA binding site [nucleotide binding]; other site 990288004104 salt bridge; other site 990288004105 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 990288004106 PLD-like domain; Region: PLDc_2; pfam13091 990288004107 putative active site [active] 990288004108 catalytic site [active] 990288004109 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_2; cd09128 990288004110 PLD-like domain; Region: PLDc_2; pfam13091 990288004111 putative active site [active] 990288004112 putative catalytic site [active] 990288004113 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 990288004114 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288004115 metal binding site [ion binding]; metal-binding site 990288004116 active site 990288004117 I-site; other site 990288004118 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 990288004119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288004120 I-site; other site 990288004121 active site 990288004122 metal binding site [ion binding]; metal-binding site 990288004123 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288004124 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288004125 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 990288004126 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 990288004127 flagellar motor protein MotA; Validated; Region: PRK09110 990288004128 flagellar motor protein MotB; Validated; Region: motB; PRK09041 990288004129 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 990288004130 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 990288004131 ligand binding site [chemical binding]; other site 990288004132 PAS domain; Region: PAS_9; pfam13426 990288004133 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288004134 metal binding site [ion binding]; metal-binding site 990288004135 active site 990288004136 I-site; other site 990288004137 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 990288004138 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 990288004139 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 990288004140 putative active site [active] 990288004141 heme pocket [chemical binding]; other site 990288004142 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 990288004143 putative active site [active] 990288004144 heme pocket [chemical binding]; other site 990288004145 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 990288004146 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288004147 metal binding site [ion binding]; metal-binding site 990288004148 active site 990288004149 I-site; other site 990288004150 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 990288004151 active site 990288004152 catalytic triad [active] 990288004153 oxyanion hole [active] 990288004154 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 990288004155 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288004156 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288004157 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 990288004158 active site 990288004159 catalytic triad [active] 990288004160 oxyanion hole [active] 990288004161 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288004162 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 990288004163 Walker A motif; other site 990288004164 ATP binding site [chemical binding]; other site 990288004165 Walker B motif; other site 990288004166 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288004167 Integrase core domain; Region: rve; pfam00665 990288004168 Transposase domain (DUF772); Region: DUF772; pfam05598 990288004169 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288004170 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 990288004171 DDE superfamily endonuclease; Region: DDE_4; cl17710 990288004172 Transposase domain (DUF772); Region: DUF772; pfam05598 990288004173 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288004174 DDE superfamily endonuclease; Region: DDE_4; cl17710 990288004175 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288004176 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288004177 HTH domain; Region: HTH_22; pfam13309 990288004178 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288004179 Integrase core domain; Region: rve; pfam00665 990288004180 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 990288004181 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 990288004182 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 990288004183 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 990288004184 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 990288004185 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288004186 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 990288004187 Walker A motif; other site 990288004188 ATP binding site [chemical binding]; other site 990288004189 Walker B motif; other site 990288004190 outer membrane porin, OprD family; Region: OprD; pfam03573 990288004191 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 990288004192 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 990288004193 gating phenylalanine in ion channel; other site 990288004194 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 990288004195 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 990288004196 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 990288004197 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 990288004198 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 990288004199 ligand binding site [chemical binding]; other site 990288004200 flexible hinge region; other site 990288004201 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 990288004202 putative switch regulator; other site 990288004203 non-specific DNA interactions [nucleotide binding]; other site 990288004204 DNA binding site [nucleotide binding] 990288004205 sequence specific DNA binding site [nucleotide binding]; other site 990288004206 putative cAMP binding site [chemical binding]; other site 990288004207 phosphate:H+ symporter; Region: 2A0109; TIGR00887 990288004208 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288004209 putative substrate translocation pore; other site 990288004210 Transposase domain (DUF772); Region: DUF772; pfam05598 990288004211 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288004212 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288004213 multidrug efflux protein; Reviewed; Region: PRK09579 990288004214 Protein export membrane protein; Region: SecD_SecF; cl14618 990288004215 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 990288004216 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 990288004217 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288004218 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 990288004219 MULE transposase domain; Region: MULE; pfam10551 990288004220 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 990288004221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288004222 active site 990288004223 phosphorylation site [posttranslational modification] 990288004224 intermolecular recognition site; other site 990288004225 dimerization interface [polypeptide binding]; other site 990288004226 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 990288004227 DNA binding site [nucleotide binding] 990288004228 HAMP domain; Region: HAMP; pfam00672 990288004229 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288004230 ATP binding site [chemical binding]; other site 990288004231 Mg2+ binding site [ion binding]; other site 990288004232 G-X-G motif; other site 990288004233 PQQ enzyme repeat; Region: PQQ; pfam01011 990288004234 PQQ-like domain; Region: PQQ_2; pfam13360 990288004235 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 990288004236 Trp docking motif [polypeptide binding]; other site 990288004237 active site 990288004238 TQO small subunit DoxD; Region: DoxD; pfam04173 990288004239 Winged helix-turn helix; Region: HTH_29; pfam13551 990288004240 Helix-turn-helix domain; Region: HTH_28; pfam13518 990288004241 Homeodomain-like domain; Region: HTH_32; pfam13565 990288004242 Winged helix-turn helix; Region: HTH_33; pfam13592 990288004243 DDE superfamily endonuclease; Region: DDE_3; pfam13358 990288004244 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 990288004245 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 990288004246 Sel1-like repeats; Region: SEL1; smart00671 990288004247 Sel1-like repeats; Region: SEL1; smart00671 990288004248 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 990288004249 Transposase domain (DUF772); Region: DUF772; pfam05598 990288004250 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288004251 DDE superfamily endonuclease; Region: DDE_4; cl17710 990288004252 PQQ-like domain; Region: PQQ_2; pfam13360 990288004253 YWTD domain; Region: YWTD; pfam13570 990288004254 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 990288004255 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 990288004256 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 990288004257 Domain of unknown function (DUF202); Region: DUF202; pfam02656 990288004258 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 990288004259 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 990288004260 molybdopterin cofactor binding site; other site 990288004261 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 990288004262 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_2; cd02783 990288004263 putative molybdopterin cofactor binding site; other site 990288004264 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 990288004265 4Fe-4S binding domain; Region: Fer4; cl02805 990288004266 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 990288004267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 990288004268 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 990288004269 NAD(P) binding site [chemical binding]; other site 990288004270 active site 990288004271 Domain of unknown function (DUF202); Region: DUF202; pfam02656 990288004272 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 990288004273 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 990288004274 FeS/SAM binding site; other site 990288004275 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 990288004276 Baculoviral E56 protein, specific to ODV envelope; Region: Baculo_E56; pfam04639 990288004277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 990288004278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 990288004279 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 990288004280 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 990288004281 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 990288004282 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 990288004283 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 990288004284 Transcriptional regulator [Transcription]; Region: LysR; COG0583 990288004285 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 990288004286 dimerization interface [polypeptide binding]; other site 990288004287 Integrase core domain; Region: rve_3; pfam13683 990288004288 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 990288004289 HTH-like domain; Region: HTH_21; pfam13276 990288004290 Integrase core domain; Region: rve; pfam00665 990288004291 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 990288004292 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 990288004293 Transposase domain (DUF772); Region: DUF772; pfam05598 990288004294 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288004295 DDE superfamily endonuclease; Region: DDE_4; cl17710 990288004296 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 990288004297 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 990288004298 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 990288004299 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 990288004300 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 990288004301 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 990288004302 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 990288004303 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 990288004304 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 990288004305 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288004306 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 990288004307 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 990288004308 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 990288004309 muropeptide transporter; Validated; Region: ampG; cl17669 990288004310 Cytochrome c; Region: Cytochrom_C; cl11414 990288004311 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 990288004312 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 990288004313 Fatty acid desaturase; Region: FA_desaturase; pfam00487 990288004314 putative di-iron ligands [ion binding]; other site 990288004315 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 990288004316 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 990288004317 putative NAD(P) binding site [chemical binding]; other site 990288004318 active site 990288004319 putative substrate binding site [chemical binding]; other site 990288004320 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 990288004321 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 990288004322 NADP binding site [chemical binding]; other site 990288004323 homopentamer interface [polypeptide binding]; other site 990288004324 substrate binding site [chemical binding]; other site 990288004325 active site 990288004326 putative cation:proton antiport protein; Provisional; Region: PRK10669 990288004327 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 990288004328 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 990288004329 TrkA-N domain; Region: TrkA_N; pfam02254 990288004330 TrkA-C domain; Region: TrkA_C; pfam02080 990288004331 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 990288004332 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 990288004333 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 990288004334 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 990288004335 putative molybdopterin cofactor binding site [chemical binding]; other site 990288004336 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 990288004337 putative molybdopterin cofactor binding site; other site 990288004338 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 990288004339 arginine decarboxylase; Provisional; Region: PRK05354 990288004340 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 990288004341 dimer interface [polypeptide binding]; other site 990288004342 active site 990288004343 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 990288004344 catalytic residues [active] 990288004345 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 990288004346 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 990288004347 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 990288004348 putative active site [active] 990288004349 PhoH-like protein; Region: PhoH; pfam02562 990288004350 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 990288004351 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 990288004352 catalytic triad [active] 990288004353 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 990288004354 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 990288004355 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 990288004356 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 990288004357 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 990288004358 Uncharacterized protein domain (DUF2202); Region: DUF2202; pfam09968 990288004359 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 990288004360 diiron binding motif [ion binding]; other site 990288004361 Predicted transcriptional regulators [Transcription]; Region: COG1695 990288004362 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 990288004363 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 990288004364 Transposase; Region: DEDD_Tnp_IS110; pfam01548 990288004365 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 990288004366 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 990288004367 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 990288004368 dimer interface [polypeptide binding]; other site 990288004369 active site 990288004370 catalytic residue [active] 990288004371 metal binding site [ion binding]; metal-binding site 990288004372 MoxR-like ATPases [General function prediction only]; Region: COG0714 990288004373 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 990288004374 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 990288004375 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 990288004376 metal ion-dependent adhesion site (MIDAS); other site 990288004377 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 990288004378 sequence-specific DNA binding site [nucleotide binding]; other site 990288004379 salt bridge; other site 990288004380 Cupin domain; Region: Cupin_2; pfam07883 990288004381 hydrogenase 4 subunit B; Validated; Region: PRK06521 990288004382 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 990288004383 NADH dehydrogenase; Region: NADHdh; cl00469 990288004384 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 990288004385 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 990288004386 hydrogenase 4 subunit F; Validated; Region: PRK06458 990288004387 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 990288004388 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 990288004389 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 990288004390 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 990288004391 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 990288004392 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 990288004393 putative dimerization interface [polypeptide binding]; other site 990288004394 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 990288004395 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 990288004396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288004397 catalytic residue [active] 990288004398 aromatic acid decarboxylase; Validated; Region: PRK05920 990288004399 Flavoprotein; Region: Flavoprotein; pfam02441 990288004400 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 990288004401 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 990288004402 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 990288004403 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 990288004404 ThiS interaction site; other site 990288004405 putative active site [active] 990288004406 tetramer interface [polypeptide binding]; other site 990288004407 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 990288004408 thiS-thiF/thiG interaction site; other site 990288004409 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 990288004410 dinuclear metal binding motif [ion binding]; other site 990288004411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 990288004412 Anti-sigma-K factor rskA; Region: RskA; pfam10099 990288004413 RNA polymerase sigma factor; Provisional; Region: PRK12514 990288004414 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 990288004415 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 990288004416 DNA binding residues [nucleotide binding] 990288004417 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 990288004418 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 990288004419 motif 1; other site 990288004420 active site 990288004421 motif 2; other site 990288004422 motif 3; other site 990288004423 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 990288004424 DHHA1 domain; Region: DHHA1; pfam02272 990288004425 RecX family; Region: RecX; pfam02631 990288004426 recombinase A; Provisional; Region: recA; PRK09354 990288004427 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 990288004428 hexamer interface [polypeptide binding]; other site 990288004429 Walker A motif; other site 990288004430 ATP binding site [chemical binding]; other site 990288004431 Walker B motif; other site 990288004432 Competence-damaged protein; Region: CinA; pfam02464 990288004433 thiamine monophosphate kinase; Provisional; Region: PRK05731 990288004434 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 990288004435 ATP binding site [chemical binding]; other site 990288004436 dimerization interface [polypeptide binding]; other site 990288004437 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 990288004438 active site 990288004439 HIGH motif; other site 990288004440 nucleotide binding site [chemical binding]; other site 990288004441 KMSKS motif; other site 990288004442 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 990288004443 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 990288004444 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 990288004445 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 990288004446 active site 990288004447 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 990288004448 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 990288004449 metal binding triad; other site 990288004450 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 990288004451 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 990288004452 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 990288004453 Protein of unknown function (DUF489); Region: DUF489; cl01097 990288004454 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 990288004455 Mechanosensitive ion channel; Region: MS_channel; pfam00924 990288004456 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 990288004457 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 990288004458 gamma subunit interface [polypeptide binding]; other site 990288004459 epsilon subunit interface [polypeptide binding]; other site 990288004460 LBP interface [polypeptide binding]; other site 990288004461 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 990288004462 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 990288004463 nucleotide binding pocket [chemical binding]; other site 990288004464 K-X-D-G motif; other site 990288004465 catalytic site [active] 990288004466 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 990288004467 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 990288004468 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 990288004469 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 990288004470 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 990288004471 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 990288004472 Walker A/P-loop; other site 990288004473 ATP binding site [chemical binding]; other site 990288004474 Q-loop/lid; other site 990288004475 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 990288004476 ABC transporter signature motif; other site 990288004477 Walker B; other site 990288004478 D-loop; other site 990288004479 H-loop/switch region; other site 990288004480 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 990288004481 potential frameshift: common BLAST hit: gi|218665880|ref|YP_002425208.1| FAD-dependent oxidoreductase 990288004482 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 990288004483 FAD dependent oxidoreductase; Region: DAO; pfam01266 990288004484 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 990288004485 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 990288004486 minor groove reading motif; other site 990288004487 helix-hairpin-helix signature motif; other site 990288004488 substrate binding pocket [chemical binding]; other site 990288004489 active site 990288004490 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 990288004491 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 990288004492 RNA binding surface [nucleotide binding]; other site 990288004493 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 990288004494 probable active site [active] 990288004495 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 990288004496 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 990288004497 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 990288004498 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 990288004499 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 990288004500 active site 990288004501 HIGH motif; other site 990288004502 dimer interface [polypeptide binding]; other site 990288004503 KMSKS motif; other site 990288004504 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 990288004505 Peptidase family M50; Region: Peptidase_M50; pfam02163 990288004506 active site 990288004507 putative substrate binding region [chemical binding]; other site 990288004508 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 990288004509 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 990288004510 Ligand Binding Site [chemical binding]; other site 990288004511 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 990288004512 dinuclear metal binding motif [ion binding]; other site 990288004513 Mechanosensitive ion channel; Region: MS_channel; pfam00924 990288004514 gamma-glutamyl kinase; Provisional; Region: PRK05429 990288004515 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 990288004516 nucleotide binding site [chemical binding]; other site 990288004517 homotetrameric interface [polypeptide binding]; other site 990288004518 putative phosphate binding site [ion binding]; other site 990288004519 putative allosteric binding site; other site 990288004520 PUA domain; Region: PUA; pfam01472 990288004521 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 990288004522 Response regulator receiver domain; Region: Response_reg; pfam00072 990288004523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288004524 active site 990288004525 phosphorylation site [posttranslational modification] 990288004526 intermolecular recognition site; other site 990288004527 dimerization interface [polypeptide binding]; other site 990288004528 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288004529 metal binding site [ion binding]; metal-binding site 990288004530 active site 990288004531 I-site; other site 990288004532 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 990288004533 GAF domain; Region: GAF; pfam01590 990288004534 PAS fold; Region: PAS_4; pfam08448 990288004535 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 990288004536 putative active site [active] 990288004537 heme pocket [chemical binding]; other site 990288004538 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 990288004539 PAS fold; Region: PAS_3; pfam08447 990288004540 putative active site [active] 990288004541 heme pocket [chemical binding]; other site 990288004542 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 990288004543 GAF domain; Region: GAF; cl17456 990288004544 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 990288004545 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 990288004546 dimer interface [polypeptide binding]; other site 990288004547 phosphorylation site [posttranslational modification] 990288004548 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288004549 ATP binding site [chemical binding]; other site 990288004550 Mg2+ binding site [ion binding]; other site 990288004551 G-X-G motif; other site 990288004552 Response regulator receiver domain; Region: Response_reg; pfam00072 990288004553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288004554 active site 990288004555 phosphorylation site [posttranslational modification] 990288004556 intermolecular recognition site; other site 990288004557 dimerization interface [polypeptide binding]; other site 990288004558 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 990288004559 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 990288004560 putative active site [active] 990288004561 putative PHP Thumb interface [polypeptide binding]; other site 990288004562 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 990288004563 generic binding surface I; other site 990288004564 generic binding surface II; other site 990288004565 Y-family of DNA polymerases; Region: PolY; cl12025 990288004566 active site 990288004567 DNA binding site [nucleotide binding] 990288004568 Cell division inhibitor SulA; Region: SulA; cl01880 990288004569 LexA repressor; Validated; Region: PRK00215 990288004570 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 990288004571 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 990288004572 Catalytic site [active] 990288004573 Protein required for attachment to host cells; Region: Host_attach; pfam10116 990288004574 Predicted membrane protein [Function unknown]; Region: COG2860 990288004575 UPF0126 domain; Region: UPF0126; pfam03458 990288004576 UPF0126 domain; Region: UPF0126; pfam03458 990288004577 putative mercuric reductase; Provisional; Region: PRK13748 990288004578 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 990288004579 metal-binding site [ion binding] 990288004580 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 990288004581 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 990288004582 sucrose synthase; Region: sucr_synth; TIGR02470 990288004583 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 990288004584 putative ADP-binding pocket [chemical binding]; other site 990288004585 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 990288004586 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 990288004587 putative ADP-binding pocket [chemical binding]; other site 990288004588 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 990288004589 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 990288004590 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 990288004591 putative substrate binding site [chemical binding]; other site 990288004592 putative ATP binding site [chemical binding]; other site 990288004593 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 990288004594 Mechanosensitive ion channel; Region: MS_channel; pfam00924 990288004595 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 990288004596 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 990288004597 dimer interface [polypeptide binding]; other site 990288004598 conserved gate region; other site 990288004599 putative PBP binding loops; other site 990288004600 ABC-ATPase subunit interface; other site 990288004601 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 990288004602 dimer interface [polypeptide binding]; other site 990288004603 conserved gate region; other site 990288004604 putative PBP binding loops; other site 990288004605 ABC-ATPase subunit interface; other site 990288004606 PBP superfamily domain; Region: PBP_like_2; cl17296 990288004607 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 990288004608 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 990288004609 active site 990288004610 Riboflavin kinase; Region: Flavokinase; pfam01687 990288004611 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 990288004612 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 990288004613 active site 990288004614 HIGH motif; other site 990288004615 nucleotide binding site [chemical binding]; other site 990288004616 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 990288004617 active site 990288004618 KMSKS motif; other site 990288004619 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 990288004620 tRNA binding surface [nucleotide binding]; other site 990288004621 anticodon binding site; other site 990288004622 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 990288004623 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 990288004624 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 990288004625 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 990288004626 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 990288004627 putative catalytic residue [active] 990288004628 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 990288004629 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 990288004630 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 990288004631 DsrE/DsrF-like family; Region: DrsE; pfam02635 990288004632 nitrilase; Region: PLN02798 990288004633 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 990288004634 putative active site [active] 990288004635 catalytic triad [active] 990288004636 dimer interface [polypeptide binding]; other site 990288004637 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 990288004638 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 990288004639 active site 990288004640 metal binding site [ion binding]; metal-binding site 990288004641 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 990288004642 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 990288004643 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 990288004644 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 990288004645 catalytic residues [active] 990288004646 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 990288004647 GSH binding site [chemical binding]; other site 990288004648 catalytic residues [active] 990288004649 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 990288004650 active site residue [active] 990288004651 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 990288004652 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 990288004653 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 990288004654 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 990288004655 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288004656 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 990288004657 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 990288004658 dimerization interface [polypeptide binding]; other site 990288004659 putative DNA binding site [nucleotide binding]; other site 990288004660 putative Zn2+ binding site [ion binding]; other site 990288004661 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 990288004662 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 990288004663 SCP-2 sterol transfer family; Region: SCP2; pfam02036 990288004664 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 990288004665 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 990288004666 putative ATP binding site [chemical binding]; other site 990288004667 putative substrate interface [chemical binding]; other site 990288004668 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 990288004669 active site 990288004670 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 990288004671 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 990288004672 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 990288004673 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 990288004674 Membrane fusogenic activity; Region: BMFP; pfam04380 990288004675 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 990288004676 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 990288004677 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 990288004678 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 990288004679 Domain of unknown function (DUF202); Region: DUF202; cl09954 990288004680 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 990288004681 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 990288004682 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 990288004683 ketol-acid reductoisomerase; Provisional; Region: PRK05479 990288004684 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 990288004685 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 990288004686 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 990288004687 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 990288004688 putative valine binding site [chemical binding]; other site 990288004689 dimer interface [polypeptide binding]; other site 990288004690 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 990288004691 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 990288004692 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 990288004693 PYR/PP interface [polypeptide binding]; other site 990288004694 dimer interface [polypeptide binding]; other site 990288004695 TPP binding site [chemical binding]; other site 990288004696 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; cd00368 990288004697 molybdopterin cofactor binding site; other site 990288004698 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 990288004699 TPP-binding site [chemical binding]; other site 990288004700 dimer interface [polypeptide binding]; other site 990288004701 MutS domain III; Region: MutS_III; pfam05192 990288004702 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288004703 Walker A/P-loop; other site 990288004704 ATP binding site [chemical binding]; other site 990288004705 Q-loop/lid; other site 990288004706 ABC transporter signature motif; other site 990288004707 Walker B; other site 990288004708 D-loop; other site 990288004709 H-loop/switch region; other site 990288004710 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 990288004711 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 990288004712 nucleoside/Zn binding site; other site 990288004713 dimer interface [polypeptide binding]; other site 990288004714 catalytic motif [active] 990288004715 Competence protein A; Region: Competence_A; pfam11104 990288004716 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 990288004717 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 990288004718 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 990288004719 Pilus assembly protein, PilO; Region: PilO; pfam04350 990288004720 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 990288004721 Pilus assembly protein, PilP; Region: PilP; pfam04351 990288004722 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 990288004723 Secretin and TonB N terminus short domain; Region: STN; smart00965 990288004724 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 990288004725 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 990288004726 shikimate kinase; Reviewed; Region: aroK; PRK00131 990288004727 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 990288004728 ADP binding site [chemical binding]; other site 990288004729 magnesium binding site [ion binding]; other site 990288004730 putative shikimate binding site; other site 990288004731 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 990288004732 active site 990288004733 dimer interface [polypeptide binding]; other site 990288004734 metal binding site [ion binding]; metal-binding site 990288004735 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 990288004736 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 990288004737 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 990288004738 Zn2+ binding site [ion binding]; other site 990288004739 Mg2+ binding site [ion binding]; other site 990288004740 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 990288004741 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 990288004742 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 990288004743 active site 990288004744 dimer interface [polypeptide binding]; other site 990288004745 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 990288004746 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 990288004747 active site 990288004748 FMN binding site [chemical binding]; other site 990288004749 substrate binding site [chemical binding]; other site 990288004750 3Fe-4S cluster binding site [ion binding]; other site 990288004751 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 990288004752 domain interface; other site 990288004753 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 990288004754 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 990288004755 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 990288004756 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 990288004757 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 990288004758 substrate binding site [chemical binding]; other site 990288004759 active site 990288004760 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 990288004761 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 990288004762 putative acyl-acceptor binding pocket; other site 990288004763 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 990288004764 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 990288004765 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 990288004766 GDP-binding site [chemical binding]; other site 990288004767 ACT binding site; other site 990288004768 IMP binding site; other site 990288004769 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 990288004770 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 990288004771 dimer interface [polypeptide binding]; other site 990288004772 motif 1; other site 990288004773 active site 990288004774 motif 2; other site 990288004775 motif 3; other site 990288004776 HflC protein; Region: hflC; TIGR01932 990288004777 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; cl02525 990288004778 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 990288004779 HflK protein; Region: hflK; TIGR01933 990288004780 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 990288004781 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 990288004782 HflX GTPase family; Region: HflX; cd01878 990288004783 G1 box; other site 990288004784 GTP/Mg2+ binding site [chemical binding]; other site 990288004785 Switch I region; other site 990288004786 G2 box; other site 990288004787 G3 box; other site 990288004788 Switch II region; other site 990288004789 G4 box; other site 990288004790 G5 box; other site 990288004791 bacterial Hfq-like; Region: Hfq; cd01716 990288004792 hexamer interface [polypeptide binding]; other site 990288004793 Sm1 motif; other site 990288004794 RNA binding site [nucleotide binding]; other site 990288004795 Sm2 motif; other site 990288004796 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 990288004797 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 990288004798 Maf-like protein; Region: Maf; pfam02545 990288004799 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 990288004800 active site 990288004801 dimer interface [polypeptide binding]; other site 990288004802 Helix-turn-helix domain; Region: HTH_28; pfam13518 990288004803 Winged helix-turn helix; Region: HTH_29; pfam13551 990288004804 Homeodomain-like domain; Region: HTH_32; pfam13565 990288004805 Integrase core domain; Region: rve; pfam00665 990288004806 Integrase core domain; Region: rve_3; pfam13683 990288004807 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 990288004808 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 990288004809 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 990288004810 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 990288004811 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 990288004812 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 990288004813 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 990288004814 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288004815 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288004816 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 990288004817 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 990288004818 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 990288004819 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 990288004820 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 990288004821 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 990288004822 Uncharacterized conserved protein [Function unknown]; Region: COG2128 990288004823 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 990288004824 MarR family; Region: MarR_2; pfam12802 990288004825 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 990288004826 dimerization interface [polypeptide binding]; other site 990288004827 putative DNA binding site [nucleotide binding]; other site 990288004828 putative Zn2+ binding site [ion binding]; other site 990288004829 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288004830 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288004831 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288004832 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 990288004833 Walker A motif; other site 990288004834 ATP binding site [chemical binding]; other site 990288004835 Walker B motif; other site 990288004836 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288004837 Integrase core domain; Region: rve; pfam00665 990288004838 Transposase domain (DUF772); Region: DUF772; pfam05598 990288004839 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 990288004840 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 990288004841 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288004842 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 990288004843 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 990288004844 active site 990288004845 DNA binding site [nucleotide binding] 990288004846 Int/Topo IB signature motif; other site 990288004847 TspO/MBR family; Region: TspO_MBR; pfam03073 990288004848 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 990288004849 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 990288004850 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 990288004851 GIY-YIG motif/motif A; other site 990288004852 active site 990288004853 catalytic site [active] 990288004854 putative DNA binding site [nucleotide binding]; other site 990288004855 metal binding site [ion binding]; metal-binding site 990288004856 UvrB/uvrC motif; Region: UVR; pfam02151 990288004857 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 990288004858 Protein of unknown function (DUF971); Region: DUF971; pfam06155 990288004859 translation elongation factor P; Region: efp; TIGR00038 990288004860 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 990288004861 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 990288004862 RNA binding site [nucleotide binding]; other site 990288004863 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 990288004864 RNA binding site [nucleotide binding]; other site 990288004865 hypothetical protein; Provisional; Region: PRK11770 990288004866 Domain of unknown function (DUF307); Region: DUF307; pfam03733 990288004867 Septum formation initiator; Region: DivIC; cl17659 990288004868 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 990288004869 enolase; Provisional; Region: eno; PRK00077 990288004870 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 990288004871 dimer interface [polypeptide binding]; other site 990288004872 metal binding site [ion binding]; metal-binding site 990288004873 substrate binding pocket [chemical binding]; other site 990288004874 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 990288004875 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 990288004876 CTP synthetase; Validated; Region: pyrG; PRK05380 990288004877 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 990288004878 active site 990288004879 UTP binding site [chemical binding]; other site 990288004880 Catalytic site [active] 990288004881 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 990288004882 active site 990288004883 putative oxyanion hole; other site 990288004884 catalytic triad [active] 990288004885 excinuclease ABC subunit B; Provisional; Region: PRK05298 990288004886 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 990288004887 ATP binding site [chemical binding]; other site 990288004888 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 990288004889 nucleotide binding region [chemical binding]; other site 990288004890 ATP-binding site [chemical binding]; other site 990288004891 Ultra-violet resistance protein B; Region: UvrB; pfam12344 990288004892 UvrB/uvrC motif; Region: UVR; pfam02151 990288004893 Winged helix-turn helix; Region: HTH_29; pfam13551 990288004894 Helix-turn-helix domain; Region: HTH_28; pfam13518 990288004895 Homeodomain-like domain; Region: HTH_32; pfam13565 990288004896 Winged helix-turn helix; Region: HTH_33; pfam13592 990288004897 DDE superfamily endonuclease; Region: DDE_3; pfam13358 990288004898 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 990288004899 Domain of unknown function (DUF1818); Region: DUF1818; pfam08848 990288004900 AAA domain; Region: AAA_25; pfam13481 990288004901 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 990288004902 Walker A motif; other site 990288004903 ATP binding site [chemical binding]; other site 990288004904 Walker B motif; other site 990288004905 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288004906 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288004907 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 990288004908 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 990288004909 active site 990288004910 DNA binding site [nucleotide binding] 990288004911 Int/Topo IB signature motif; other site 990288004912 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 990288004913 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288004914 Double zinc ribbon; Region: DZR; pfam12773 990288004915 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 990288004916 Double zinc ribbon; Region: DZR; pfam12773 990288004917 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 990288004918 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288004919 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288004920 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 990288004921 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 990288004922 ATP binding site [chemical binding]; other site 990288004923 Mg++ binding site [ion binding]; other site 990288004924 motif III; other site 990288004925 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 990288004926 nucleotide binding region [chemical binding]; other site 990288004927 ATP-binding site [chemical binding]; other site 990288004928 High potential iron-sulfur protein; Region: HIPIP; pfam01355 990288004929 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 990288004930 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 990288004931 catalytic triad [active] 990288004932 ammonium transporter; Region: amt; TIGR00836 990288004933 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 990288004934 Nitrogen regulatory protein P-II; Region: P-II; smart00938 990288004935 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 990288004936 glutamine synthetase; Provisional; Region: glnA; PRK09469 990288004937 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 990288004938 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 990288004939 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 990288004940 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288004941 active site 990288004942 phosphorylation site [posttranslational modification] 990288004943 intermolecular recognition site; other site 990288004944 dimerization interface [polypeptide binding]; other site 990288004945 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 990288004946 Walker A motif; other site 990288004947 ATP binding site [chemical binding]; other site 990288004948 Walker B motif; other site 990288004949 arginine finger; other site 990288004950 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 990288004951 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 990288004952 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 990288004953 putative active site [active] 990288004954 heme pocket [chemical binding]; other site 990288004955 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 990288004956 dimer interface [polypeptide binding]; other site 990288004957 phosphorylation site [posttranslational modification] 990288004958 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288004959 ATP binding site [chemical binding]; other site 990288004960 Mg2+ binding site [ion binding]; other site 990288004961 G-X-G motif; other site 990288004962 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 990288004963 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 990288004964 active site 990288004965 Cache domain; Region: Cache_1; pfam02743 990288004966 RNA polymerase factor sigma-70; Validated; Region: PRK09047 990288004967 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 990288004968 DNA binding residues [nucleotide binding] 990288004969 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 990288004970 putative homodimer interface [polypeptide binding]; other site 990288004971 putative homotetramer interface [polypeptide binding]; other site 990288004972 putative allosteric switch controlling residues; other site 990288004973 putative metal binding site [ion binding]; other site 990288004974 putative homodimer-homodimer interface [polypeptide binding]; other site 990288004975 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 990288004976 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 990288004977 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288004978 Outer membrane efflux protein; Region: OEP; pfam02321 990288004979 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 990288004980 metal-binding site [ion binding] 990288004981 Domain of unknown function DUF302; Region: DUF302; pfam03625 990288004982 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 990288004983 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 990288004984 metal-binding site [ion binding] 990288004985 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 990288004986 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 990288004987 motif I; other site 990288004988 motif II; other site 990288004989 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 990288004990 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 990288004991 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 990288004992 Predicted permeases [General function prediction only]; Region: COG0701 990288004993 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 990288004994 dimerization interface [polypeptide binding]; other site 990288004995 putative DNA binding site [nucleotide binding]; other site 990288004996 putative Zn2+ binding site [ion binding]; other site 990288004997 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 990288004998 glutaredoxin 2; Provisional; Region: PRK10387 990288004999 C-terminal domain interface [polypeptide binding]; other site 990288005000 GSH binding site (G-site) [chemical binding]; other site 990288005001 dimer interface [polypeptide binding]; other site 990288005002 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 990288005003 dimer interface [polypeptide binding]; other site 990288005004 N-terminal domain interface [polypeptide binding]; other site 990288005005 substrate binding pocket (H-site) [chemical binding]; other site 990288005006 Predicted membrane protein [Function unknown]; Region: COG3462 990288005007 Short C-terminal domain; Region: SHOCT; pfam09851 990288005008 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 990288005009 S-adenosylmethionine binding site [chemical binding]; other site 990288005010 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288005011 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 990288005012 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 990288005013 dimerization interface [polypeptide binding]; other site 990288005014 putative DNA binding site [nucleotide binding]; other site 990288005015 putative Zn2+ binding site [ion binding]; other site 990288005016 Major Facilitator Superfamily; Region: MFS_1; pfam07690 990288005017 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288005018 putative substrate translocation pore; other site 990288005019 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288005020 putative substrate translocation pore; other site 990288005021 DsrE/DsrF-like family; Region: DrsE; cl00672 990288005022 OsmC-like protein; Region: OsmC; pfam02566 990288005023 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 990288005024 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 990288005025 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 990288005026 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288005027 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288005028 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288005029 Protein of unknown function (DUF692); Region: DUF692; cl01263 990288005030 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288005031 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 990288005032 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 990288005033 putative active site [active] 990288005034 catalytic triad [active] 990288005035 putative dimer interface [polypeptide binding]; other site 990288005036 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 990288005037 active site 990288005038 DNA polymerase IV; Validated; Region: PRK02406 990288005039 DNA binding site [nucleotide binding] 990288005040 potential frameshift: common BLAST hit: gi|218668077|ref|YP_002425766.1| ISAfe2, transposase 990288005041 Transposase, Mutator family; Region: Transposase_mut; pfam00872 990288005042 MULE transposase domain; Region: MULE; pfam10551 990288005043 Transposase, Mutator family; Region: Transposase_mut; pfam00872 990288005044 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 990288005045 Transposase; Region: DEDD_Tnp_IS110; pfam01548 990288005046 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 990288005047 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 990288005048 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 990288005049 ligand binding site [chemical binding]; other site 990288005050 flexible hinge region; other site 990288005051 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 990288005052 putative switch regulator; other site 990288005053 non-specific DNA interactions [nucleotide binding]; other site 990288005054 DNA binding site [nucleotide binding] 990288005055 sequence specific DNA binding site [nucleotide binding]; other site 990288005056 putative cAMP binding site [chemical binding]; other site 990288005057 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 990288005058 heme-binding site [chemical binding]; other site 990288005059 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 990288005060 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 990288005061 catalytic loop [active] 990288005062 iron binding site [ion binding]; other site 990288005063 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 990288005064 FAD binding pocket [chemical binding]; other site 990288005065 FAD binding motif [chemical binding]; other site 990288005066 phosphate binding motif [ion binding]; other site 990288005067 beta-alpha-beta structure motif; other site 990288005068 NAD binding pocket [chemical binding]; other site 990288005069 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 990288005070 catalytic residues [active] 990288005071 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 990288005072 glycine cleavage system protein H; Provisional; Region: PRK13380 990288005073 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 990288005074 lipoyl attachment site [posttranslational modification]; other site 990288005075 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 990288005076 endonuclease III; Region: ENDO3c; smart00478 990288005077 minor groove reading motif; other site 990288005078 helix-hairpin-helix signature motif; other site 990288005079 substrate binding pocket [chemical binding]; other site 990288005080 active site 990288005081 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 990288005082 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 990288005083 gating phenylalanine in ion channel; other site 990288005084 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 990288005085 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288005086 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 990288005087 N-terminal domain interface [polypeptide binding]; other site 990288005088 dimer interface [polypeptide binding]; other site 990288005089 substrate binding pocket (H-site) [chemical binding]; other site 990288005090 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288005091 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288005092 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 990288005093 Hemerythrin-like domain; Region: Hr-like; cd12108 990288005094 Fe binding site [ion binding]; other site 990288005095 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 990288005096 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 990288005097 [4Fe-4S] binding site [ion binding]; other site 990288005098 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 990288005099 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 990288005100 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 990288005101 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 990288005102 molybdopterin cofactor binding site; other site 990288005103 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 990288005104 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 990288005105 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 990288005106 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 990288005107 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288005108 putative substrate translocation pore; other site 990288005109 Uncharacterized conserved protein [Function unknown]; Region: COG3189 990288005110 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 990288005111 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 990288005112 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288005113 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288005114 Integrase core domain; Region: rve; pfam00665 990288005115 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288005116 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288005117 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 990288005118 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288005119 Walker A motif; other site 990288005120 ATP binding site [chemical binding]; other site 990288005121 Walker B motif; other site 990288005122 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 990288005123 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288005124 putative substrate translocation pore; other site 990288005125 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 990288005126 Transcriptional regulator [Transcription]; Region: LysR; COG0583 990288005127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 990288005128 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 990288005129 dimerization interface [polypeptide binding]; other site 990288005130 Transposase domain (DUF772); Region: DUF772; pfam05598 990288005131 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288005132 Integrase core domain; Region: rve_3; pfam13683 990288005133 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 990288005134 putative hydrolase; Provisional; Region: PRK02113 990288005135 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 990288005136 active site 990288005137 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 990288005138 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 990288005139 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 990288005140 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 990288005141 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 990288005142 active site 990288005143 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 990288005144 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 990288005145 Domain of unknown function DUF20; Region: UPF0118; pfam01594 990288005146 protoporphyrinogen oxidase; Region: proto_IX_ox; TIGR00562 990288005147 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 990288005148 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 990288005149 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 990288005150 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 990288005151 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 990288005152 ssDNA binding site; other site 990288005153 generic binding surface II; other site 990288005154 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 990288005155 ATP binding site [chemical binding]; other site 990288005156 putative Mg++ binding site [ion binding]; other site 990288005157 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 990288005158 nucleotide binding region [chemical binding]; other site 990288005159 ATP-binding site [chemical binding]; other site 990288005160 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 990288005161 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 990288005162 homotrimer interaction site [polypeptide binding]; other site 990288005163 putative active site [active] 990288005164 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 990288005165 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 990288005166 Zn2+ binding site [ion binding]; other site 990288005167 Mg2+ binding site [ion binding]; other site 990288005168 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 990288005169 synthetase active site [active] 990288005170 NTP binding site [chemical binding]; other site 990288005171 metal binding site [ion binding]; metal-binding site 990288005172 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 990288005173 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 990288005174 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 990288005175 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 990288005176 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 990288005177 catalytic site [active] 990288005178 G-X2-G-X-G-K; other site 990288005179 hypothetical protein; Provisional; Region: PRK11820 990288005180 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 990288005181 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 990288005182 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 990288005183 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 990288005184 metal binding triad; other site 990288005185 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 990288005186 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 990288005187 metal binding triad; other site 990288005188 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 990288005189 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 990288005190 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 990288005191 homodimer interface [polypeptide binding]; other site 990288005192 substrate-cofactor binding pocket; other site 990288005193 catalytic residue [active] 990288005194 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 990288005195 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 990288005196 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 990288005197 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 990288005198 DsbD alpha interface [polypeptide binding]; other site 990288005199 catalytic residues [active] 990288005200 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 990288005201 GAF domain; Region: GAF; pfam01590 990288005202 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 990288005203 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288005204 metal binding site [ion binding]; metal-binding site 990288005205 active site 990288005206 I-site; other site 990288005207 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 990288005208 apolar tunnel; other site 990288005209 heme binding site [chemical binding]; other site 990288005210 dimerization interface [polypeptide binding]; other site 990288005211 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 990288005212 Helix-turn-helix domain; Region: HTH_28; pfam13518 990288005213 Winged helix-turn helix; Region: HTH_29; pfam13551 990288005214 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 990288005215 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 990288005216 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 990288005217 active site 990288005218 DNA binding site [nucleotide binding] 990288005219 Int/Topo IB signature motif; other site 990288005220 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 990288005221 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 990288005222 Helix-turn-helix domain; Region: HTH_17; pfam12728 990288005223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 990288005224 Toprim domain; Region: Toprim_3; pfam13362 990288005225 active site 990288005226 metal binding site [ion binding]; metal-binding site 990288005227 D5 N terminal like; Region: D5_N; smart00885 990288005228 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 990288005229 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 990288005230 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 990288005231 generic binding surface I; other site 990288005232 generic binding surface II; other site 990288005233 Restriction endonuclease; Region: Mrr_cat; pfam04471 990288005234 integrase; Provisional; Region: PRK09692 990288005235 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 990288005236 active site 990288005237 DNA binding site [nucleotide binding] 990288005238 Int/Topo IB signature motif; other site 990288005239 potential frameshift: common BLAST hit: gi|218667415|ref|YP_002425496.1| HNH endonuclease domain protein 990288005240 RRXRR protein; Region: RRXRR; pfam14239 990288005241 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 990288005242 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 990288005243 active site 990288005244 RRXRR protein; Region: RRXRR; pfam14239 990288005245 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 990288005246 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288005247 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 990288005248 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288005249 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288005250 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 990288005251 generic binding surface II; other site 990288005252 ssDNA binding site; other site 990288005253 DEAD-like helicases superfamily; Region: DEXDc; smart00487 990288005254 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 990288005255 putative Mg++ binding site [ion binding]; other site 990288005256 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 990288005257 nucleotide binding region [chemical binding]; other site 990288005258 ATP-binding site [chemical binding]; other site 990288005259 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 990288005260 putative acyl-acceptor binding pocket; other site 990288005261 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 990288005262 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 990288005263 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 990288005264 PRTRC system protein D; Region: PRTRC_D; TIGR03739 990288005265 Mg binding site [ion binding]; other site 990288005266 nucleotide binding site [chemical binding]; other site 990288005267 putative protofilament interface [polypeptide binding]; other site 990288005268 Putative helicase; Region: TraI_2; pfam07514 990288005269 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 990288005270 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 990288005271 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 990288005272 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 990288005273 AntA/AntB antirepressor; Region: AntA; pfam08346 990288005274 MT-A70; Region: MT-A70; cl01947 990288005275 Type II/IV secretion system protein; Region: T2SE; pfam00437 990288005276 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 990288005277 Walker A motif; other site 990288005278 hexamer interface [polypeptide binding]; other site 990288005279 ATP binding site [chemical binding]; other site 990288005280 Walker B motif; other site 990288005281 Peptidase family M48; Region: Peptidase_M48; cl12018 990288005282 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 990288005283 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 990288005284 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 990288005285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288005286 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288005287 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 990288005288 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288005289 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288005290 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 990288005291 VirB8 protein; Region: VirB8; pfam04335 990288005292 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 990288005293 VirB7 interaction site; other site 990288005294 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 990288005295 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 990288005296 N-acetyl-D-glucosamine binding site [chemical binding]; other site 990288005297 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 990288005298 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 990288005299 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 990288005300 Type II/IV secretion system protein; Region: T2SE; pfam00437 990288005301 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 990288005302 Walker A motif; other site 990288005303 ATP binding site [chemical binding]; other site 990288005304 Walker B motif; other site 990288005305 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 990288005306 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 990288005307 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 990288005308 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 990288005309 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 990288005310 Walker A motif; other site 990288005311 ATP binding site [chemical binding]; other site 990288005312 Walker B motif; other site 990288005313 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288005314 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288005315 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 990288005316 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 990288005317 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 990288005318 N-acetyl-D-glucosamine binding site [chemical binding]; other site 990288005319 catalytic residue [active] 990288005320 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 990288005321 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288005322 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288005323 ParB-like nuclease domain; Region: ParB; smart00470 990288005324 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 990288005325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 990288005326 Transposase; Region: DEDD_Tnp_IS110; pfam01548 990288005327 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 990288005328 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 990288005329 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 990288005330 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 990288005331 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 990288005332 catalytic triad [active] 990288005333 conserved cis-peptide bond; other site 990288005334 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 990288005335 Transposase, Mutator family; Region: Transposase_mut; pfam00872 990288005336 MULE transposase domain; Region: MULE; pfam10551 990288005337 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 990288005338 Predicted transcriptional regulator [Transcription]; Region: COG2944 990288005339 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 990288005340 non-specific DNA binding site [nucleotide binding]; other site 990288005341 salt bridge; other site 990288005342 sequence-specific DNA binding site [nucleotide binding]; other site 990288005343 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288005344 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 990288005345 Walker A motif; other site 990288005346 ATP binding site [chemical binding]; other site 990288005347 Walker B motif; other site 990288005348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288005349 Integrase core domain; Region: rve; pfam00665 990288005350 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 990288005351 Family description; Region: UvrD_C_2; pfam13538 990288005352 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 990288005353 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 990288005354 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 990288005355 N-acetyl-D-glucosamine binding site [chemical binding]; other site 990288005356 catalytic residue [active] 990288005357 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 990288005358 PLD-like domain; Region: PLDc_2; pfam13091 990288005359 putative active site [active] 990288005360 catalytic site [active] 990288005361 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_2; cd09128 990288005362 PLD-like domain; Region: PLDc_2; pfam13091 990288005363 putative active site [active] 990288005364 putative catalytic site [active] 990288005365 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 990288005366 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 990288005367 dimer interface [polypeptide binding]; other site 990288005368 ssDNA binding site [nucleotide binding]; other site 990288005369 tetramer (dimer of dimers) interface [polypeptide binding]; other site 990288005370 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288005371 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288005372 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288005373 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288005374 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14952 990288005375 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 990288005376 DNA-binding interface [nucleotide binding]; DNA binding site 990288005377 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288005378 Integrase core domain; Region: rve; pfam00665 990288005379 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288005380 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288005381 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 990288005382 Walker A motif; other site 990288005383 ATP binding site [chemical binding]; other site 990288005384 Walker B motif; other site 990288005385 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 990288005386 active site 990288005387 metal binding site [ion binding]; metal-binding site 990288005388 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; cl17512 990288005389 putative DNA binding surface [nucleotide binding]; other site 990288005390 dimer interface [polypeptide binding]; other site 990288005391 beta-clamp/translesion DNA polymerase binding surface; other site 990288005392 beta-clamp/clamp loader binding surface; other site 990288005393 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 990288005394 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288005395 Walker A/P-loop; other site 990288005396 ATP binding site [chemical binding]; other site 990288005397 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288005398 Q-loop/lid; other site 990288005399 ABC transporter signature motif; other site 990288005400 Walker B; other site 990288005401 D-loop; other site 990288005402 H-loop/switch region; other site 990288005403 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288005404 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288005405 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 990288005406 dimer interface [polypeptide binding]; other site 990288005407 putative radical transfer pathway; other site 990288005408 diiron center [ion binding]; other site 990288005409 tyrosyl radical; other site 990288005410 ParB-like nuclease domain; Region: ParBc; pfam02195 990288005411 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 990288005412 PRTRC system protein E; Region: PRTRC_E; TIGR03741 990288005413 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 990288005414 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 990288005415 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 990288005416 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; cd01483 990288005417 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 990288005418 ATP binding site [chemical binding]; other site 990288005419 Methyltransferase domain; Region: Methyltransf_26; pfam13659 990288005420 DEAD-like helicases superfamily; Region: DEXDc; smart00487 990288005421 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 990288005422 nucleotide binding region [chemical binding]; other site 990288005423 ATP-binding site [chemical binding]; other site 990288005424 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288005425 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288005426 ParB-like nuclease domain; Region: ParBc; pfam02195 990288005427 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; pfam08273 990288005428 Toprim domain; Region: Toprim_3; pfam13362 990288005429 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 990288005430 TPR motif; other site 990288005431 binding surface 990288005432 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 990288005433 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 990288005434 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 990288005435 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 990288005436 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288005437 multidrug efflux protein; Reviewed; Region: PRK09579 990288005438 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 990288005439 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 990288005440 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 990288005441 homodimer interface [polypeptide binding]; other site 990288005442 NADP binding site [chemical binding]; other site 990288005443 substrate binding site [chemical binding]; other site 990288005444 polyphosphate kinase; Provisional; Region: PRK05443 990288005445 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 990288005446 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 990288005447 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 990288005448 putative domain interface [polypeptide binding]; other site 990288005449 putative active site [active] 990288005450 catalytic site [active] 990288005451 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 990288005452 putative domain interface [polypeptide binding]; other site 990288005453 putative active site [active] 990288005454 catalytic site [active] 990288005455 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 990288005456 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 990288005457 P-loop; other site 990288005458 Magnesium ion binding site [ion binding]; other site 990288005459 Uncharacterized conserved protein [Function unknown]; Region: COG3025 990288005460 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 990288005461 putative active site [active] 990288005462 putative metal binding residues [ion binding]; other site 990288005463 signature motif; other site 990288005464 putative triphosphate binding site [ion binding]; other site 990288005465 CHAD domain; Region: CHAD; pfam05235 990288005466 aminopeptidase N; Provisional; Region: pepN; PRK14015 990288005467 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 990288005468 Zn binding site [ion binding]; other site 990288005469 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288005470 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 990288005471 Clp amino terminal domain; Region: Clp_N; pfam02861 990288005472 Clp amino terminal domain; Region: Clp_N; pfam02861 990288005473 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 990288005474 Walker A motif; other site 990288005475 ATP binding site [chemical binding]; other site 990288005476 Walker B motif; other site 990288005477 arginine finger; other site 990288005478 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 990288005479 Walker A motif; other site 990288005480 ATP binding site [chemical binding]; other site 990288005481 Walker B motif; other site 990288005482 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 990288005483 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288005484 putative substrate translocation pore; other site 990288005485 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 990288005486 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 990288005487 Tetramer interface [polypeptide binding]; other site 990288005488 active site 990288005489 FMN-binding site [chemical binding]; other site 990288005490 putative GTP cyclohydrolase; Provisional; Region: PRK13674 990288005491 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 990288005492 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 990288005493 TPP-binding site; other site 990288005494 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 990288005495 PYR/PP interface [polypeptide binding]; other site 990288005496 dimer interface [polypeptide binding]; other site 990288005497 TPP binding site [chemical binding]; other site 990288005498 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 990288005499 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 990288005500 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 990288005501 substrate binding pocket [chemical binding]; other site 990288005502 chain length determination region; other site 990288005503 substrate-Mg2+ binding site; other site 990288005504 catalytic residues [active] 990288005505 aspartate-rich region 1; other site 990288005506 active site lid residues [active] 990288005507 aspartate-rich region 2; other site 990288005508 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 990288005509 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 990288005510 Protein export membrane protein; Region: SecD_SecF; pfam02355 990288005511 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 990288005512 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 990288005513 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 990288005514 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 990288005515 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 990288005516 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 990288005517 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 990288005518 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 990288005519 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 990288005520 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 990288005521 Domain of unknown function DUF21; Region: DUF21; pfam01595 990288005522 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 990288005523 Transporter associated domain; Region: CorC_HlyC; smart01091 990288005524 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 990288005525 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 990288005526 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 990288005527 homodimer interface [polypeptide binding]; other site 990288005528 substrate-cofactor binding pocket; other site 990288005529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288005530 catalytic residue [active] 990288005531 amidophosphoribosyltransferase; Provisional; Region: PRK09123 990288005532 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 990288005533 active site 990288005534 tetramer interface [polypeptide binding]; other site 990288005535 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 990288005536 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 990288005537 active site 990288005538 Colicin V production protein; Region: Colicin_V; pfam02674 990288005539 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 990288005540 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 990288005541 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 990288005542 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 990288005543 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 990288005544 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 990288005545 substrate binding site [chemical binding]; other site 990288005546 active site 990288005547 catalytic residues [active] 990288005548 heterodimer interface [polypeptide binding]; other site 990288005549 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 990288005550 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 990288005551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288005552 catalytic residue [active] 990288005553 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 990288005554 active site 990288005555 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 990288005556 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 990288005557 dimerization interface 3.5A [polypeptide binding]; other site 990288005558 FimV N-terminal domain; Region: FimV_core; TIGR03505 990288005559 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 990288005560 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 990288005561 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 990288005562 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 990288005563 tartrate dehydrogenase; Region: TTC; TIGR02089 990288005564 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 990288005565 GTP binding site; other site 990288005566 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 990288005567 Walker A motif; other site 990288005568 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 990288005569 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 990288005570 dimer interface [polypeptide binding]; other site 990288005571 putative functional site; other site 990288005572 putative MPT binding site; other site 990288005573 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 990288005574 PLD-like domain; Region: PLDc_2; pfam13091 990288005575 putative active site [active] 990288005576 catalytic site [active] 990288005577 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 990288005578 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 990288005579 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 990288005580 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 990288005581 motif II; other site 990288005582 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 990288005583 DNA photolyase; Region: DNA_photolyase; pfam00875 990288005584 hypothetical protein; Validated; Region: PRK09039 990288005585 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 990288005586 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 990288005587 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 990288005588 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 990288005589 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 990288005590 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 990288005591 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 990288005592 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 990288005593 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 990288005594 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 990288005595 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 990288005596 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 990288005597 Walker A/P-loop; other site 990288005598 ATP binding site [chemical binding]; other site 990288005599 Q-loop/lid; other site 990288005600 ABC transporter signature motif; other site 990288005601 Walker B; other site 990288005602 D-loop; other site 990288005603 H-loop/switch region; other site 990288005604 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 990288005605 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 990288005606 Walker A/P-loop; other site 990288005607 ATP binding site [chemical binding]; other site 990288005608 Q-loop/lid; other site 990288005609 ABC transporter signature motif; other site 990288005610 Walker B; other site 990288005611 D-loop; other site 990288005612 H-loop/switch region; other site 990288005613 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 990288005614 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 990288005615 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288005616 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288005617 Major Facilitator Superfamily; Region: MFS_1; pfam07690 990288005618 putative substrate translocation pore; other site 990288005619 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288005620 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 990288005621 Ligand Binding Site [chemical binding]; other site 990288005622 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 990288005623 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 990288005624 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 990288005625 dimerization interface [polypeptide binding]; other site 990288005626 ATP binding site [chemical binding]; other site 990288005627 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 990288005628 dimerization interface [polypeptide binding]; other site 990288005629 ATP binding site [chemical binding]; other site 990288005630 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 990288005631 putative active site [active] 990288005632 catalytic triad [active] 990288005633 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 990288005634 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 990288005635 ATP binding site [chemical binding]; other site 990288005636 active site 990288005637 substrate binding site [chemical binding]; other site 990288005638 adenylosuccinate lyase; Provisional; Region: PRK07492 990288005639 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 990288005640 tetramer interface [polypeptide binding]; other site 990288005641 active site 990288005642 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 990288005643 lipoprotein; Provisional; Region: PRK11679 990288005644 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 990288005645 dihydrodipicolinate synthase; Region: dapA; TIGR00674 990288005646 dimer interface [polypeptide binding]; other site 990288005647 active site 990288005648 catalytic residue [active] 990288005649 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 990288005650 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 990288005651 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 990288005652 oligomerisation interface [polypeptide binding]; other site 990288005653 mobile loop; other site 990288005654 roof hairpin; other site 990288005655 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 990288005656 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 990288005657 ring oligomerisation interface [polypeptide binding]; other site 990288005658 ATP/Mg binding site [chemical binding]; other site 990288005659 stacking interactions; other site 990288005660 hinge regions; other site 990288005661 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 990288005662 active site 990288005663 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 990288005664 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 990288005665 active site 990288005666 nucleotide binding site [chemical binding]; other site 990288005667 HIGH motif; other site 990288005668 KMSKS motif; other site 990288005669 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 990288005670 ligand-binding site [chemical binding]; other site 990288005671 Domain of unknown function (DUF814); Region: DUF814; pfam05670 990288005672 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 990288005673 Cytochrome c [Energy production and conversion]; Region: COG3258 990288005674 Cytochrome c [Energy production and conversion]; Region: COG3258 990288005675 ResB-like family; Region: ResB; pfam05140 990288005676 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 990288005677 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 990288005678 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 990288005679 active site 990288005680 metal binding site [ion binding]; metal-binding site 990288005681 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 990288005682 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 990288005683 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 990288005684 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 990288005685 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 990288005686 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 990288005687 Subunit I/III interface [polypeptide binding]; other site 990288005688 cytochrome o ubiquinol oxidase, subunit I; Region: CyoB; TIGR02843 990288005689 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 990288005690 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 990288005691 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 990288005692 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288005693 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 990288005694 Walker A motif; other site 990288005695 ATP binding site [chemical binding]; other site 990288005696 Walker B motif; other site 990288005697 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288005698 Integrase core domain; Region: rve; pfam00665 990288005699 SCP-2 sterol transfer family; Region: SCP2; cl01225 990288005700 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 990288005701 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 990288005702 GatB domain; Region: GatB_Yqey; smart00845 990288005703 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 990288005704 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 990288005705 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 990288005706 VacJ like lipoprotein; Region: VacJ; cl01073 990288005707 hopanoid biosynthesis associated membrane protein HpnM; Region: HpnM; TIGR03481 990288005708 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 990288005709 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 990288005710 FeS/SAM binding site; other site 990288005711 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 990288005712 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 990288005713 dinuclear metal binding motif [ion binding]; other site 990288005714 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 990288005715 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 990288005716 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 990288005717 putative active site [active] 990288005718 YdjC motif; other site 990288005719 Mg binding site [ion binding]; other site 990288005720 putative homodimer interface [polypeptide binding]; other site 990288005721 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 990288005722 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 990288005723 B12 binding site [chemical binding]; other site 990288005724 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 990288005725 FeS/SAM binding site; other site 990288005726 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 990288005727 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 990288005728 ligand binding site; other site 990288005729 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 990288005730 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 990288005731 putative NADP binding site [chemical binding]; other site 990288005732 putative substrate binding site [chemical binding]; other site 990288005733 active site 990288005734 hopanoid-associated phosphorylase; Region: HpnG; TIGR03468 990288005735 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 990288005736 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 990288005737 Active site cavity [active] 990288005738 catalytic acid [active] 990288005739 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 990288005740 active site lid residues [active] 990288005741 substrate binding pocket [chemical binding]; other site 990288005742 catalytic residues [active] 990288005743 substrate-Mg2+ binding site; other site 990288005744 aspartate-rich region 1; other site 990288005745 aspartate-rich region 2; other site 990288005746 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 990288005747 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 990288005748 Walker A/P-loop; other site 990288005749 ATP binding site [chemical binding]; other site 990288005750 Q-loop/lid; other site 990288005751 ABC transporter signature motif; other site 990288005752 Walker B; other site 990288005753 D-loop; other site 990288005754 H-loop/switch region; other site 990288005755 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 990288005756 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 990288005757 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 990288005758 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 990288005759 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 990288005760 ATP binding site [chemical binding]; other site 990288005761 substrate interface [chemical binding]; other site 990288005762 MoeZ/MoeB domain; Region: MoeZ_MoeB; pfam05237 990288005763 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 990288005764 putative catalytic site [active] 990288005765 putative metal binding site [ion binding]; other site 990288005766 putative phosphate binding site [ion binding]; other site 990288005767 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 990288005768 Permease; Region: Permease; pfam02405 990288005769 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 990288005770 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 990288005771 Walker A/P-loop; other site 990288005772 ATP binding site [chemical binding]; other site 990288005773 Q-loop/lid; other site 990288005774 ABC transporter signature motif; other site 990288005775 Walker B; other site 990288005776 D-loop; other site 990288005777 H-loop/switch region; other site 990288005778 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 990288005779 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 990288005780 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 990288005781 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 990288005782 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 990288005783 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 990288005784 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 990288005785 active site 990288005786 catalytic site [active] 990288005787 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 990288005788 Transposase, Mutator family; Region: Transposase_mut; pfam00872 990288005789 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 990288005790 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 990288005791 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 990288005792 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 990288005793 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 990288005794 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 990288005795 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 990288005796 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 990288005797 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 990288005798 DNA binding residues [nucleotide binding] 990288005799 DNA primase, catalytic core; Region: dnaG; TIGR01391 990288005800 CHC2 zinc finger; Region: zf-CHC2; pfam01807 990288005801 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 990288005802 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 990288005803 active site 990288005804 metal binding site [ion binding]; metal-binding site 990288005805 interdomain interaction site; other site 990288005806 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 990288005807 MutS domain III; Region: MutS_III; pfam05192 990288005808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288005809 Walker A/P-loop; other site 990288005810 ATP binding site [chemical binding]; other site 990288005811 Q-loop/lid; other site 990288005812 ABC transporter signature motif; other site 990288005813 Walker B; other site 990288005814 D-loop; other site 990288005815 H-loop/switch region; other site 990288005816 Smr domain; Region: Smr; pfam01713 990288005817 Yqey-like protein; Region: YqeY; pfam09424 990288005818 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 990288005819 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 990288005820 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 990288005821 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 990288005822 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 990288005823 active site 990288005824 dimerization interface [polypeptide binding]; other site 990288005825 ribonuclease PH; Reviewed; Region: rph; PRK00173 990288005826 Ribonuclease PH; Region: RNase_PH_bact; cd11362 990288005827 hexamer interface [polypeptide binding]; other site 990288005828 active site 990288005829 Protein of unknown function, DUF481; Region: DUF481; pfam04338 990288005830 heat shock protein 90; Provisional; Region: PRK05218 990288005831 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288005832 ATP binding site [chemical binding]; other site 990288005833 Mg2+ binding site [ion binding]; other site 990288005834 G-X-G motif; other site 990288005835 Protein of unknown function (DUF423); Region: DUF423; pfam04241 990288005836 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 990288005837 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 990288005838 putative NAD(P) binding site [chemical binding]; other site 990288005839 active site 990288005840 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 990288005841 Sel1-like repeats; Region: SEL1; smart00671 990288005842 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 990288005843 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 990288005844 Ligand binding site; other site 990288005845 DXD motif; other site 990288005846 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 990288005847 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 990288005848 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 990288005849 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 990288005850 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 990288005851 PAS domain; Region: PAS_9; pfam13426 990288005852 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 990288005853 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 990288005854 Walker A motif; other site 990288005855 ATP binding site [chemical binding]; other site 990288005856 Walker B motif; other site 990288005857 arginine finger; other site 990288005858 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 990288005859 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 990288005860 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 990288005861 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 990288005862 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 990288005863 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 990288005864 ThiC-associated domain; Region: ThiC-associated; pfam13667 990288005865 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 990288005866 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 990288005867 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 990288005868 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 990288005869 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 990288005870 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 990288005871 dimerization interface [polypeptide binding]; other site 990288005872 domain crossover interface; other site 990288005873 redox-dependent activation switch; other site 990288005874 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 990288005875 Ligand Binding Site [chemical binding]; other site 990288005876 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 990288005877 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 990288005878 putative ribose interaction site [chemical binding]; other site 990288005879 putative ADP binding site [chemical binding]; other site 990288005880 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 990288005881 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 990288005882 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 990288005883 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 990288005884 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 990288005885 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 990288005886 active site 990288005887 hydrophilic channel; other site 990288005888 dimerization interface [polypeptide binding]; other site 990288005889 catalytic residues [active] 990288005890 active site lid [active] 990288005891 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 990288005892 Recombination protein O C terminal; Region: RecO_C; pfam02565 990288005893 GTPase Era; Reviewed; Region: era; PRK00089 990288005894 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 990288005895 G1 box; other site 990288005896 GTP/Mg2+ binding site [chemical binding]; other site 990288005897 Switch I region; other site 990288005898 G2 box; other site 990288005899 Switch II region; other site 990288005900 G3 box; other site 990288005901 G4 box; other site 990288005902 G5 box; other site 990288005903 KH domain; Region: KH_2; pfam07650 990288005904 ribonuclease III; Reviewed; Region: rnc; PRK00102 990288005905 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 990288005906 dimerization interface [polypeptide binding]; other site 990288005907 active site 990288005908 metal binding site [ion binding]; metal-binding site 990288005909 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 990288005910 signal peptidase I; Provisional; Region: PRK10861 990288005911 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 990288005912 Catalytic site [active] 990288005913 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 990288005914 GTP-binding protein LepA; Provisional; Region: PRK05433 990288005915 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 990288005916 G1 box; other site 990288005917 putative GEF interaction site [polypeptide binding]; other site 990288005918 GTP/Mg2+ binding site [chemical binding]; other site 990288005919 Switch I region; other site 990288005920 G2 box; other site 990288005921 G3 box; other site 990288005922 Switch II region; other site 990288005923 G4 box; other site 990288005924 G5 box; other site 990288005925 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 990288005926 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 990288005927 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 990288005928 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 990288005929 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 990288005930 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 990288005931 protein binding site [polypeptide binding]; other site 990288005932 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 990288005933 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 990288005934 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 990288005935 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 990288005936 DNA binding residues [nucleotide binding] 990288005937 L-aspartate oxidase; Provisional; Region: PRK09077 990288005938 L-aspartate oxidase; Provisional; Region: PRK06175 990288005939 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 990288005940 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 990288005941 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 990288005942 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 990288005943 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 990288005944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288005945 Walker A/P-loop; other site 990288005946 ATP binding site [chemical binding]; other site 990288005947 Q-loop/lid; other site 990288005948 ABC transporter signature motif; other site 990288005949 Walker B; other site 990288005950 D-loop; other site 990288005951 H-loop/switch region; other site 990288005952 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 990288005953 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 990288005954 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288005955 Walker A/P-loop; other site 990288005956 ATP binding site [chemical binding]; other site 990288005957 Q-loop/lid; other site 990288005958 ABC transporter signature motif; other site 990288005959 Walker B; other site 990288005960 D-loop; other site 990288005961 H-loop/switch region; other site 990288005962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 990288005963 FIST N domain; Region: FIST; smart00897 990288005964 FIST C domain; Region: FIST_C; pfam10442 990288005965 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 990288005966 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 990288005967 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 990288005968 G1 box; other site 990288005969 putative GEF interaction site [polypeptide binding]; other site 990288005970 GTP/Mg2+ binding site [chemical binding]; other site 990288005971 Switch I region; other site 990288005972 G2 box; other site 990288005973 G3 box; other site 990288005974 Switch II region; other site 990288005975 G4 box; other site 990288005976 G5 box; other site 990288005977 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 990288005978 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 990288005979 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 990288005980 Glycoprotease family; Region: Peptidase_M22; pfam00814 990288005981 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 990288005982 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 990288005983 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 990288005984 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 990288005985 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 990288005986 NlpC/P60 family; Region: NLPC_P60; pfam00877 990288005987 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288005988 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 990288005989 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 990288005990 putative active site; other site 990288005991 catalytic triad [active] 990288005992 putative dimer interface [polypeptide binding]; other site 990288005993 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 990288005994 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 990288005995 putative active site [active] 990288005996 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 990288005997 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 990288005998 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 990288005999 conserved cys residue [active] 990288006000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 990288006001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 990288006002 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 990288006003 putative dimerization interface [polypeptide binding]; other site 990288006004 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 990288006005 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 990288006006 active site 990288006007 catalytic tetrad [active] 990288006008 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 990288006009 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 990288006010 active site 990288006011 Zn binding site [ion binding]; other site 990288006012 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 990288006013 metal ion-dependent adhesion site (MIDAS); other site 990288006014 MoxR-like ATPases [General function prediction only]; Region: COG0714 990288006015 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 990288006016 Walker A motif; other site 990288006017 ATP binding site [chemical binding]; other site 990288006018 Walker B motif; other site 990288006019 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 990288006020 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 990288006021 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 990288006022 Biotin synthase-related enzyme [General function prediction only]; Region: COG2516 990288006023 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 990288006024 FeS/SAM binding site; other site 990288006025 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 990288006026 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 990288006027 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 990288006028 Uncharacterized homolog of biotin synthetase [Function unknown]; Region: COG1856 990288006029 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 990288006030 FeS/SAM binding site; other site 990288006031 glycine cleavage system protein H; Provisional; Region: PRK13380 990288006032 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 990288006033 lipoyl attachment site [posttranslational modification]; other site 990288006034 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 990288006035 glycine cleavage system protein H; Provisional; Region: PRK13380 990288006036 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 990288006037 lipoyl attachment site [posttranslational modification]; other site 990288006038 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 990288006039 Cysteine-rich domain; Region: CCG; pfam02754 990288006040 Cysteine-rich domain; Region: CCG; pfam02754 990288006041 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 990288006042 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 990288006043 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 990288006044 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 990288006045 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 990288006046 Cysteine-rich domain; Region: CCG; pfam02754 990288006047 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 990288006048 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 990288006049 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 990288006050 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 990288006051 CPxP motif; other site 990288006052 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 990288006053 active site residue [active] 990288006054 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 990288006055 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 990288006056 FeS/SAM binding site; other site 990288006057 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 990288006058 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 990288006059 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 990288006060 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 990288006061 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 990288006062 molybdopterin cofactor binding site; other site 990288006063 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 990288006064 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_2; cd02783 990288006065 putative molybdopterin cofactor binding site; other site 990288006066 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 990288006067 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 990288006068 trimer interface [polypeptide binding]; other site 990288006069 dimer interface [polypeptide binding]; other site 990288006070 putative active site [active] 990288006071 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 990288006072 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 990288006073 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 990288006074 dimer interface [polypeptide binding]; other site 990288006075 phosphorylation site [posttranslational modification] 990288006076 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288006077 ATP binding site [chemical binding]; other site 990288006078 Mg2+ binding site [ion binding]; other site 990288006079 G-X-G motif; other site 990288006080 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 990288006081 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288006082 active site 990288006083 phosphorylation site [posttranslational modification] 990288006084 intermolecular recognition site; other site 990288006085 dimerization interface [polypeptide binding]; other site 990288006086 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 990288006087 Walker A motif; other site 990288006088 ATP binding site [chemical binding]; other site 990288006089 Walker B motif; other site 990288006090 arginine finger; other site 990288006091 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 990288006092 Cytochrome c; Region: Cytochrom_C; pfam00034 990288006093 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 990288006094 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 990288006095 Cytochrome c [Energy production and conversion]; Region: COG3258 990288006096 Cytochrome c [Energy production and conversion]; Region: COG3258 990288006097 Domain of unknown function DUF302; Region: DUF302; cl01364 990288006098 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 990288006099 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 990288006100 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 990288006101 active site 990288006102 metal binding site [ion binding]; metal-binding site 990288006103 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 990288006104 rod shape-determining protein MreB; Provisional; Region: PRK13927 990288006105 MreB and similar proteins; Region: MreB_like; cd10225 990288006106 nucleotide binding site [chemical binding]; other site 990288006107 Mg binding site [ion binding]; other site 990288006108 putative protofilament interaction site [polypeptide binding]; other site 990288006109 RodZ interaction site [polypeptide binding]; other site 990288006110 rod shape-determining protein MreC; Provisional; Region: PRK13922 990288006111 rod shape-determining protein MreC; Region: MreC; pfam04085 990288006112 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 990288006113 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 990288006114 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 990288006115 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 990288006116 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 990288006117 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 990288006118 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 990288006119 Protein of unknown function (DUF493); Region: DUF493; pfam04359 990288006120 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 990288006121 lipoyl synthase; Provisional; Region: PRK05481 990288006122 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 990288006123 FeS/SAM binding site; other site 990288006124 Uncharacterized conserved protein [Function unknown]; Region: COG1434 990288006125 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 990288006126 putative active site [active] 990288006127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 990288006128 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 990288006129 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 990288006130 Conserved hypothetical ATP binding protein; Region: ATP_bind_1; pfam03029 990288006131 G1 box; other site 990288006132 GTP/Mg2+ binding site [chemical binding]; other site 990288006133 G2 box; other site 990288006134 Switch I region; other site 990288006135 G3 box; other site 990288006136 Switch II region; other site 990288006137 G4 box; other site 990288006138 G5 box; other site 990288006139 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 990288006140 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 990288006141 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 990288006142 dimer interface [polypeptide binding]; other site 990288006143 motif 1; other site 990288006144 active site 990288006145 motif 2; other site 990288006146 motif 3; other site 990288006147 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 990288006148 DALR anticodon binding domain; Region: DALR_1; smart00836 990288006149 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 990288006150 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 990288006151 active site 990288006152 motif I; other site 990288006153 motif II; other site 990288006154 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 990288006155 ATP-grasp domain; Region: ATP-grasp_4; cl17255 990288006156 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 990288006157 Cysteine-rich domain; Region: CCG; pfam02754 990288006158 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 990288006159 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 990288006160 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 990288006161 catalytic residues [active] 990288006162 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 990288006163 aromatic arch; other site 990288006164 DCoH dimer interaction site [polypeptide binding]; other site 990288006165 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 990288006166 DCoH tetramer interaction site [polypeptide binding]; other site 990288006167 substrate binding site [chemical binding]; other site 990288006168 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 990288006169 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 990288006170 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 990288006171 amidase catalytic site [active] 990288006172 Zn binding residues [ion binding]; other site 990288006173 substrate binding site [chemical binding]; other site 990288006174 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 990288006175 catalytic residues [active] 990288006176 peroxiredoxin; Provisional; Region: PRK13189 990288006177 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 990288006178 dimer interface [polypeptide binding]; other site 990288006179 decamer (pentamer of dimers) interface [polypeptide binding]; other site 990288006180 catalytic triad [active] 990288006181 2-isopropylmalate synthase; Validated; Region: PRK00915 990288006182 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 990288006183 active site 990288006184 catalytic residues [active] 990288006185 metal binding site [ion binding]; metal-binding site 990288006186 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 990288006187 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 990288006188 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 990288006189 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 990288006190 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 990288006191 Phosphoesterase family; Region: Phosphoesterase; pfam04185 990288006192 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 990288006193 Transposase domain (DUF772); Region: DUF772; pfam05598 990288006194 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288006195 DDE superfamily endonuclease; Region: DDE_4; cl17710 990288006196 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 990288006197 Cysteine-rich domain; Region: CCG; pfam02754 990288006198 Cysteine-rich domain; Region: CCG; pfam02754 990288006199 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 990288006200 FAD binding domain; Region: FAD_binding_4; pfam01565 990288006201 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 990288006202 FAD binding domain; Region: FAD_binding_4; pfam01565 990288006203 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 990288006204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 990288006205 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 990288006206 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 990288006207 TPP-binding site [chemical binding]; other site 990288006208 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 990288006209 Transcriptional regulator [Transcription]; Region: IclR; COG1414 990288006210 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 990288006211 Bacterial transcriptional regulator; Region: IclR; pfam01614 990288006212 D-galactonate transporter; Region: 2A0114; TIGR00893 990288006213 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 990288006214 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 990288006215 PAS domain; Region: PAS_9; pfam13426 990288006216 putative active site [active] 990288006217 heme pocket [chemical binding]; other site 990288006218 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 990288006219 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 990288006220 Walker A motif; other site 990288006221 ATP binding site [chemical binding]; other site 990288006222 Walker B motif; other site 990288006223 arginine finger; other site 990288006224 Homeodomain-like domain; Region: HTH_23; pfam13384 990288006225 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 990288006226 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 990288006227 CPxP motif; other site 990288006228 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 990288006229 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 990288006230 active site 990288006231 catalytic residues [active] 990288006232 metal binding site [ion binding]; metal-binding site 990288006233 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 990288006234 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 990288006235 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 990288006236 intersubunit interface [polypeptide binding]; other site 990288006237 active site 990288006238 Zn2+ binding site [ion binding]; other site 990288006239 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 990288006240 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 990288006241 active site 990288006242 motif I; other site 990288006243 motif II; other site 990288006244 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 990288006245 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 990288006246 dimer interface [polypeptide binding]; other site 990288006247 active site 990288006248 catalytic residue [active] 990288006249 metal binding site [ion binding]; metal-binding site 990288006250 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 990288006251 Cupin domain; Region: Cupin_2; pfam07883 990288006252 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 990288006253 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 990288006254 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 990288006255 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 990288006256 active site 990288006257 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 990288006258 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 990288006259 Nitrogen regulatory protein P-II; Region: P-II; smart00938 990288006260 NAD synthetase; Provisional; Region: PRK13981 990288006261 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 990288006262 multimer interface [polypeptide binding]; other site 990288006263 active site 990288006264 catalytic triad [active] 990288006265 protein interface 1 [polypeptide binding]; other site 990288006266 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 990288006267 homodimer interface [polypeptide binding]; other site 990288006268 NAD binding pocket [chemical binding]; other site 990288006269 ATP binding pocket [chemical binding]; other site 990288006270 Mg binding site [ion binding]; other site 990288006271 active-site loop [active] 990288006272 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 990288006273 CoA binding domain; Region: CoA_binding; pfam02629 990288006274 CoA-ligase; Region: Ligase_CoA; pfam00549 990288006275 Protein chain release factor A [Translation, ribosomal structure and biogenesis]; Region: PrfA; COG0216 990288006276 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 990288006277 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 990288006278 CoA-ligase; Region: Ligase_CoA; pfam00549 990288006279 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 990288006280 isocitrate dehydrogenase; Validated; Region: PRK06451 990288006281 aconitate hydratase; Validated; Region: PRK07229 990288006282 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 990288006283 substrate binding site [chemical binding]; other site 990288006284 ligand binding site [chemical binding]; other site 990288006285 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 990288006286 substrate binding site [chemical binding]; other site 990288006287 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 990288006288 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 990288006289 Sulfate transporter family; Region: Sulfate_transp; pfam00916 990288006290 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 990288006291 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 990288006292 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 990288006293 active site 990288006294 HIGH motif; other site 990288006295 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 990288006296 active site 990288006297 KMSKS motif; other site 990288006298 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 990288006299 N-acetyl-D-glucosamine binding site [chemical binding]; other site 990288006300 catalytic residue [active] 990288006301 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 990288006302 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 990288006303 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 990288006304 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 990288006305 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 990288006306 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 990288006307 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 990288006308 NAD binding site [chemical binding]; other site 990288006309 homotetramer interface [polypeptide binding]; other site 990288006310 homodimer interface [polypeptide binding]; other site 990288006311 substrate binding site [chemical binding]; other site 990288006312 active site 990288006313 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 990288006314 putative active site [active] 990288006315 transaldolase; Provisional; Region: PRK03903 990288006316 catalytic residue [active] 990288006317 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 990288006318 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 990288006319 substrate binding site [chemical binding]; other site 990288006320 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 990288006321 putative active site [active] 990288006322 putative metal binding site [ion binding]; other site 990288006323 aspartate kinase; Reviewed; Region: PRK06635 990288006324 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 990288006325 putative nucleotide binding site [chemical binding]; other site 990288006326 putative catalytic residues [active] 990288006327 putative Mg ion binding site [ion binding]; other site 990288006328 putative aspartate binding site [chemical binding]; other site 990288006329 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 990288006330 putative allosteric regulatory site; other site 990288006331 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 990288006332 putative allosteric regulatory residue; other site 990288006333 acetylornithine aminotransferase; Provisional; Region: PRK02627 990288006334 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 990288006335 inhibitor-cofactor binding pocket; inhibition site 990288006336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288006337 catalytic residue [active] 990288006338 ornithine carbamoyltransferase; Provisional; Region: PRK00779 990288006339 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 990288006340 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 990288006341 argininosuccinate synthase; Provisional; Region: PRK13820 990288006342 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 990288006343 ANP binding site [chemical binding]; other site 990288006344 Substrate Binding Site II [chemical binding]; other site 990288006345 Substrate Binding Site I [chemical binding]; other site 990288006346 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 990288006347 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 990288006348 dimer interface [polypeptide binding]; other site 990288006349 active site 990288006350 metal binding site [ion binding]; metal-binding site 990288006351 glutathione binding site [chemical binding]; other site 990288006352 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 990288006353 active site 990288006354 catalytic site [active] 990288006355 substrate binding site [chemical binding]; other site 990288006356 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 990288006357 RNA/DNA hybrid binding site [nucleotide binding]; other site 990288006358 active site 990288006359 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 990288006360 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 990288006361 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 990288006362 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 990288006363 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 990288006364 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 990288006365 RNase E interface [polypeptide binding]; other site 990288006366 trimer interface [polypeptide binding]; other site 990288006367 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 990288006368 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 990288006369 RNase E interface [polypeptide binding]; other site 990288006370 trimer interface [polypeptide binding]; other site 990288006371 active site 990288006372 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 990288006373 putative nucleic acid binding region [nucleotide binding]; other site 990288006374 G-X-X-G motif; other site 990288006375 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 990288006376 RNA binding site [nucleotide binding]; other site 990288006377 domain interface; other site 990288006378 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 990288006379 16S/18S rRNA binding site [nucleotide binding]; other site 990288006380 S13e-L30e interaction site [polypeptide binding]; other site 990288006381 25S rRNA binding site [nucleotide binding]; other site 990288006382 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 990288006383 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 990288006384 RNA binding site [nucleotide binding]; other site 990288006385 active site 990288006386 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 990288006387 Ribosome-binding factor A; Region: RBFA; pfam02033 990288006388 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 990288006389 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 990288006390 translation initiation factor IF-2; Region: IF-2; TIGR00487 990288006391 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 990288006392 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 990288006393 G1 box; other site 990288006394 putative GEF interaction site [polypeptide binding]; other site 990288006395 GTP/Mg2+ binding site [chemical binding]; other site 990288006396 Switch I region; other site 990288006397 G2 box; other site 990288006398 G3 box; other site 990288006399 Switch II region; other site 990288006400 G4 box; other site 990288006401 G5 box; other site 990288006402 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 990288006403 Translation-initiation factor 2; Region: IF-2; pfam11987 990288006404 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 990288006405 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 990288006406 NusA N-terminal domain; Region: NusA_N; pfam08529 990288006407 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 990288006408 RNA binding site [nucleotide binding]; other site 990288006409 homodimer interface [polypeptide binding]; other site 990288006410 NusA-like KH domain; Region: KH_5; pfam13184 990288006411 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 990288006412 G-X-X-G motif; other site 990288006413 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 990288006414 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 990288006415 ribosome maturation protein RimP; Reviewed; Region: PRK00092 990288006416 Sm and related proteins; Region: Sm_like; cl00259 990288006417 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 990288006418 putative oligomer interface [polypeptide binding]; other site 990288006419 putative RNA binding site [nucleotide binding]; other site 990288006420 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 990288006421 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 990288006422 Walker A/P-loop; other site 990288006423 ATP binding site [chemical binding]; other site 990288006424 Q-loop/lid; other site 990288006425 ABC transporter signature motif; other site 990288006426 Walker B; other site 990288006427 D-loop; other site 990288006428 H-loop/switch region; other site 990288006429 CAAX protease self-immunity; Region: Abi; pfam02517 990288006430 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 990288006431 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 990288006432 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 990288006433 seryl-tRNA synthetase; Provisional; Region: PRK05431 990288006434 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 990288006435 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 990288006436 dimer interface [polypeptide binding]; other site 990288006437 active site 990288006438 motif 1; other site 990288006439 motif 2; other site 990288006440 motif 3; other site 990288006441 recombination factor protein RarA; Reviewed; Region: PRK13342 990288006442 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 990288006443 Walker A motif; other site 990288006444 ATP binding site [chemical binding]; other site 990288006445 Walker B motif; other site 990288006446 arginine finger; other site 990288006447 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 990288006448 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 990288006449 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 990288006450 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 990288006451 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 990288006452 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 990288006453 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 990288006454 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 990288006455 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 990288006456 Smr domain; Region: Smr; pfam01713 990288006457 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 990288006458 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 990288006459 DNA binding residues [nucleotide binding] 990288006460 dimer interface [polypeptide binding]; other site 990288006461 metal binding site [ion binding]; metal-binding site 990288006462 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 990288006463 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 990288006464 Permutation of conserved domain; other site 990288006465 active site 990288006466 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 990288006467 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 990288006468 homotrimer interaction site [polypeptide binding]; other site 990288006469 zinc binding site [ion binding]; other site 990288006470 CDP-binding sites; other site 990288006471 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 990288006472 substrate binding site; other site 990288006473 dimer interface; other site 990288006474 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 990288006475 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 990288006476 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 990288006477 ATP binding site [chemical binding]; other site 990288006478 putative Mg++ binding site [ion binding]; other site 990288006479 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 990288006480 nucleotide binding region [chemical binding]; other site 990288006481 ATP-binding site [chemical binding]; other site 990288006482 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 990288006483 phosphoserine phosphatase SerB; Region: serB; TIGR00338 990288006484 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 990288006485 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 990288006486 motif II; other site 990288006487 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 990288006488 catalytic triad [active] 990288006489 dimer interface [polypeptide binding]; other site 990288006490 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288006491 glutathione reductase; Validated; Region: PRK06116 990288006492 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 990288006493 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 990288006494 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 990288006495 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 990288006496 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 990288006497 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 990288006498 active site 990288006499 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 990288006500 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 990288006501 hypothetical protein; Reviewed; Region: PRK00024 990288006502 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 990288006503 MPN+ (JAMM) motif; other site 990288006504 Zinc-binding site [ion binding]; other site 990288006505 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 990288006506 Flavoprotein; Region: Flavoprotein; pfam02441 990288006507 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 990288006508 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 990288006509 trimer interface [polypeptide binding]; other site 990288006510 active site 990288006511 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 990288006512 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 990288006513 trimer interface [polypeptide binding]; other site 990288006514 active site 990288006515 antiporter inner membrane protein; Provisional; Region: PRK11670 990288006516 Domain of unknown function DUF59; Region: DUF59; pfam01883 990288006517 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 990288006518 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 990288006519 dihydrodipicolinate reductase; Provisional; Region: PRK00048 990288006520 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 990288006521 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 990288006522 chaperone protein DnaJ; Provisional; Region: PRK10767 990288006523 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 990288006524 HSP70 interaction site [polypeptide binding]; other site 990288006525 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 990288006526 substrate binding site [polypeptide binding]; other site 990288006527 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 990288006528 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 990288006529 dimer interface [polypeptide binding]; other site 990288006530 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 990288006531 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 990288006532 nucleotide binding site [chemical binding]; other site 990288006533 GrpE; Region: GrpE; pfam01025 990288006534 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 990288006535 dimer interface [polypeptide binding]; other site 990288006536 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 990288006537 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 990288006538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 990288006539 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 990288006540 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 990288006541 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 990288006542 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 990288006543 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 990288006544 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 990288006545 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 990288006546 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 990288006547 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 990288006548 S-adenosylmethionine binding site [chemical binding]; other site 990288006549 MFS/sugar transport protein; Region: MFS_2; pfam13347 990288006550 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 990288006551 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 990288006552 classical (c) SDRs; Region: SDR_c; cd05233 990288006553 NAD(P) binding site [chemical binding]; other site 990288006554 active site 990288006555 AMP-binding enzyme; Region: AMP-binding; pfam00501 990288006556 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 990288006557 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 990288006558 acyl-activating enzyme (AAE) consensus motif; other site 990288006559 acyl-activating enzyme (AAE) consensus motif; other site 990288006560 active site 990288006561 AMP binding site [chemical binding]; other site 990288006562 CoA binding site [chemical binding]; other site 990288006563 photoactive yellow protein; Region: photo_yellow; TIGR02373 990288006564 PAS fold; Region: PAS; pfam00989 990288006565 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 990288006566 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 990288006567 DNA binding residues [nucleotide binding] 990288006568 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 990288006569 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 990288006570 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 990288006571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 990288006572 short chain dehydrogenase; Provisional; Region: PRK07024 990288006573 NAD(P) binding site [chemical binding]; other site 990288006574 active site 990288006575 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 990288006576 substrate binding site [chemical binding]; other site 990288006577 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 990288006578 dimer interface [polypeptide binding]; other site 990288006579 putative radical transfer pathway; other site 990288006580 diiron center [ion binding]; other site 990288006581 tyrosyl radical; other site 990288006582 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 990288006583 ATP cone domain; Region: ATP-cone; pfam03477 990288006584 ATP cone domain; Region: ATP-cone; pfam03477 990288006585 Class I ribonucleotide reductase; Region: RNR_I; cd01679 990288006586 active site 990288006587 dimer interface [polypeptide binding]; other site 990288006588 catalytic residues [active] 990288006589 effector binding site; other site 990288006590 R2 peptide binding site; other site 990288006591 protease TldD; Provisional; Region: tldD; PRK10735 990288006592 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 990288006593 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 990288006594 Walker A motif; other site 990288006595 ATP binding site [chemical binding]; other site 990288006596 Walker B motif; other site 990288006597 arginine finger; other site 990288006598 Peptidase family M41; Region: Peptidase_M41; pfam01434 990288006599 dihydropteroate synthase; Region: DHPS; TIGR01496 990288006600 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 990288006601 substrate binding pocket [chemical binding]; other site 990288006602 dimer interface [polypeptide binding]; other site 990288006603 inhibitor binding site; inhibition site 990288006604 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 990288006605 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 990288006606 active site 990288006607 substrate binding site [chemical binding]; other site 990288006608 metal binding site [ion binding]; metal-binding site 990288006609 triosephosphate isomerase; Provisional; Region: PRK14567 990288006610 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 990288006611 dimer interface [polypeptide binding]; other site 990288006612 substrate binding site [chemical binding]; other site 990288006613 catalytic triad [active] 990288006614 Preprotein translocase SecG subunit; Region: SecG; pfam03840 990288006615 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 990288006616 NADH dehydrogenase subunit B; Validated; Region: PRK06411 990288006617 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 990288006618 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 990288006619 NADH dehydrogenase subunit D; Validated; Region: PRK06075 990288006620 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 990288006621 NADH dehydrogenase subunit E; Validated; Region: PRK07539 990288006622 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 990288006623 putative dimer interface [polypeptide binding]; other site 990288006624 [2Fe-2S] cluster binding site [ion binding]; other site 990288006625 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 990288006626 SLBB domain; Region: SLBB; pfam10531 990288006627 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 990288006628 NADH dehydrogenase subunit G; Validated; Region: PRK09129 990288006629 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 990288006630 catalytic loop [active] 990288006631 iron binding site [ion binding]; other site 990288006632 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 990288006633 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 990288006634 molybdopterin cofactor binding site; other site 990288006635 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 990288006636 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 990288006637 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 990288006638 4Fe-4S binding domain; Region: Fer4; pfam00037 990288006639 4Fe-4S binding domain; Region: Fer4; pfam00037 990288006640 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 990288006641 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 990288006642 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 990288006643 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 990288006644 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 990288006645 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 990288006646 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 990288006647 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 990288006648 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 990288006649 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 990288006650 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 990288006651 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 990288006652 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 990288006653 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 990288006654 active site 990288006655 dimer interface [polypeptide binding]; other site 990288006656 motif 1; other site 990288006657 motif 2; other site 990288006658 motif 3; other site 990288006659 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 990288006660 anticodon binding site; other site 990288006661 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 990288006662 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 990288006663 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 990288006664 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 990288006665 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 990288006666 23S rRNA binding site [nucleotide binding]; other site 990288006667 L21 binding site [polypeptide binding]; other site 990288006668 L13 binding site [polypeptide binding]; other site 990288006669 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 990288006670 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 990288006671 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 990288006672 dimer interface [polypeptide binding]; other site 990288006673 motif 1; other site 990288006674 active site 990288006675 motif 2; other site 990288006676 motif 3; other site 990288006677 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 990288006678 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 990288006679 putative tRNA-binding site [nucleotide binding]; other site 990288006680 B3/4 domain; Region: B3_4; pfam03483 990288006681 tRNA synthetase B5 domain; Region: B5; smart00874 990288006682 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 990288006683 dimer interface [polypeptide binding]; other site 990288006684 motif 1; other site 990288006685 motif 3; other site 990288006686 motif 2; other site 990288006687 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 990288006688 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 990288006689 IHF - DNA interface [nucleotide binding]; other site 990288006690 IHF dimer interface [polypeptide binding]; other site 990288006691 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 990288006692 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 990288006693 DNA binding residues [nucleotide binding] 990288006694 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 990288006695 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 990288006696 Walker A/P-loop; other site 990288006697 ATP binding site [chemical binding]; other site 990288006698 Q-loop/lid; other site 990288006699 ABC transporter signature motif; other site 990288006700 Walker B; other site 990288006701 D-loop; other site 990288006702 H-loop/switch region; other site 990288006703 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 990288006704 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 990288006705 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 990288006706 dimer interface [polypeptide binding]; other site 990288006707 conserved gate region; other site 990288006708 putative PBP binding loops; other site 990288006709 ABC-ATPase subunit interface; other site 990288006710 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 990288006711 domain interfaces; other site 990288006712 active site 990288006713 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 990288006714 dinuclear metal binding motif [ion binding]; other site 990288006715 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 990288006716 NADH dehydrogenase subunit B; Validated; Region: PRK06411 990288006717 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 990288006718 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 990288006719 NADH dehydrogenase subunit D; Validated; Region: PRK06075 990288006720 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 990288006721 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 990288006722 putative dimer interface [polypeptide binding]; other site 990288006723 [2Fe-2S] cluster binding site [ion binding]; other site 990288006724 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 990288006725 SLBB domain; Region: SLBB; pfam10531 990288006726 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 990288006727 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 990288006728 NADH dehydrogenase subunit G; Validated; Region: PRK08166 990288006729 catalytic loop [active] 990288006730 iron binding site [ion binding]; other site 990288006731 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 990288006732 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 990288006733 molybdopterin cofactor binding site; other site 990288006734 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 990288006735 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 990288006736 4Fe-4S binding domain; Region: Fer4; pfam00037 990288006737 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 990288006738 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 990288006739 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 990288006740 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 990288006741 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 990288006742 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 990288006743 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 990288006744 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 990288006745 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 990288006746 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 990288006747 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 990288006748 S-adenosylmethionine binding site [chemical binding]; other site 990288006749 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 990288006750 catalytic core [active] 990288006751 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 990288006752 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 990288006753 metal binding site 2 [ion binding]; metal-binding site 990288006754 putative DNA binding helix; other site 990288006755 metal binding site 1 [ion binding]; metal-binding site 990288006756 dimer interface [polypeptide binding]; other site 990288006757 structural Zn2+ binding site [ion binding]; other site 990288006758 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 990288006759 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 990288006760 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 990288006761 putative coenzyme Q binding site [chemical binding]; other site 990288006762 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 990288006763 putative active site [active] 990288006764 catalytic site [active] 990288006765 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 990288006766 putative active site [active] 990288006767 catalytic site [active] 990288006768 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 990288006769 SmpB-tmRNA interface; other site 990288006770 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 990288006771 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 990288006772 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288006773 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 990288006774 ATP-grasp domain; Region: ATP-grasp; pfam02222 990288006775 AIR carboxylase; Region: AIRC; cl00310 990288006776 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 990288006777 S-adenosylmethionine binding site [chemical binding]; other site 990288006778 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 990288006779 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 990288006780 ligand binding site [chemical binding]; other site 990288006781 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 990288006782 putative switch regulator; other site 990288006783 non-specific DNA interactions [nucleotide binding]; other site 990288006784 DNA binding site [nucleotide binding] 990288006785 sequence specific DNA binding site [nucleotide binding]; other site 990288006786 putative cAMP binding site [chemical binding]; other site 990288006787 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 990288006788 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 990288006789 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 990288006790 potential frameshift: common BLAST hit: gi|218668135|ref|YP_002424773.1| glycosyl transferase, group 2 family protein 990288006791 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 990288006792 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 990288006793 active site 990288006794 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 990288006795 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 990288006796 Walker A motif; other site 990288006797 ATP binding site [chemical binding]; other site 990288006798 Walker B motif; other site 990288006799 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 990288006800 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 990288006801 Walker A motif; other site 990288006802 ATP binding site [chemical binding]; other site 990288006803 Walker B motif; other site 990288006804 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 990288006805 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 990288006806 catalytic residue [active] 990288006807 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 990288006808 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 990288006809 YGGT family; Region: YGGT; pfam02325 990288006810 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 990288006811 biotin synthase; Provisional; Region: PRK15108 990288006812 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 990288006813 FeS/SAM binding site; other site 990288006814 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 990288006815 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 990288006816 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 990288006817 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 990288006818 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288006819 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 990288006820 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 990288006821 active site 990288006822 motif I; other site 990288006823 motif II; other site 990288006824 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 990288006825 feedback inhibition sensing region; other site 990288006826 homohexameric interface [polypeptide binding]; other site 990288006827 nucleotide binding site [chemical binding]; other site 990288006828 N-acetyl-L-glutamate binding site [chemical binding]; other site 990288006829 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 990288006830 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 990288006831 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 990288006832 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 990288006833 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 990288006834 catalytic loop [active] 990288006835 iron binding site [ion binding]; other site 990288006836 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 990288006837 FAD binding pocket [chemical binding]; other site 990288006838 FAD binding motif [chemical binding]; other site 990288006839 phosphate binding motif [ion binding]; other site 990288006840 beta-alpha-beta structure motif; other site 990288006841 NAD binding pocket [chemical binding]; other site 990288006842 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 990288006843 ribonuclease T; Provisional; Region: PRK05168 990288006844 active site 990288006845 catalytic site [active] 990288006846 substrate binding site [chemical binding]; other site 990288006847 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 990288006848 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 990288006849 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 990288006850 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 990288006851 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 990288006852 Peptidase family M48; Region: Peptidase_M48; cl12018 990288006853 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 990288006854 AAA domain; Region: AAA_26; pfam13500 990288006855 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 990288006856 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 990288006857 S-adenosylmethionine binding site [chemical binding]; other site 990288006858 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 990288006859 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 990288006860 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 990288006861 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 990288006862 catalytic residue [active] 990288006863 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 990288006864 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 990288006865 active site 990288006866 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 990288006867 phosphate:H+ symporter; Region: 2A0109; TIGR00887 990288006868 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288006869 putative substrate translocation pore; other site 990288006870 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 990288006871 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 990288006872 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 990288006873 Methyltransferase domain; Region: Methyltransf_31; pfam13847 990288006874 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 990288006875 S-adenosylmethionine binding site [chemical binding]; other site 990288006876 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 990288006877 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 990288006878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288006879 homodimer interface [polypeptide binding]; other site 990288006880 catalytic residue [active] 990288006881 Putative phosphatase (DUF442); Region: DUF442; cl17385 990288006882 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 990288006883 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 990288006884 putative active site [active] 990288006885 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 990288006886 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 990288006887 putative metal binding site; other site 990288006888 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 990288006889 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 990288006890 Probable Catalytic site; other site 990288006891 metal-binding site 990288006892 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 990288006893 O-Antigen ligase; Region: Wzy_C; pfam04932 990288006894 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 990288006895 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 990288006896 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 990288006897 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 990288006898 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 990288006899 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 990288006900 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cl04270 990288006901 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 990288006902 putative active site [active] 990288006903 putative metal binding site [ion binding]; other site 990288006904 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 990288006905 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 990288006906 Ligand binding site; other site 990288006907 Putative Catalytic site; other site 990288006908 DXD motif; other site 990288006909 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 990288006910 active site 990288006911 8-oxo-dGMP binding site [chemical binding]; other site 990288006912 nudix motif; other site 990288006913 metal binding site [ion binding]; metal-binding site 990288006914 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 990288006915 thiamine phosphate binding site [chemical binding]; other site 990288006916 active site 990288006917 pyrophosphate binding site [ion binding]; other site 990288006918 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 990288006919 heterotetramer interface [polypeptide binding]; other site 990288006920 active site pocket [active] 990288006921 cleavage site 990288006922 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 990288006923 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 990288006924 ATP binding site [chemical binding]; other site 990288006925 putative Mg++ binding site [ion binding]; other site 990288006926 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 990288006927 SEC-C motif; Region: SEC-C; pfam02810 990288006928 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 990288006929 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 990288006930 stringent starvation protein A; Provisional; Region: sspA; PRK09481 990288006931 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 990288006932 C-terminal domain interface [polypeptide binding]; other site 990288006933 putative GSH binding site (G-site) [chemical binding]; other site 990288006934 dimer interface [polypeptide binding]; other site 990288006935 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 990288006936 N-terminal domain interface [polypeptide binding]; other site 990288006937 dimer interface [polypeptide binding]; other site 990288006938 substrate binding pocket (H-site) [chemical binding]; other site 990288006939 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 990288006940 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 990288006941 acyl-activating enzyme (AAE) consensus motif; other site 990288006942 putative AMP binding site [chemical binding]; other site 990288006943 putative active site [active] 990288006944 putative CoA binding site [chemical binding]; other site 990288006945 cell division protein MraZ; Reviewed; Region: PRK00326 990288006946 MraZ protein; Region: MraZ; pfam02381 990288006947 MraZ protein; Region: MraZ; pfam02381 990288006948 MraW methylase family; Region: Methyltransf_5; cl17771 990288006949 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 990288006950 Cell division protein FtsL; Region: FtsL; pfam04999 990288006951 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 990288006952 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 990288006953 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 990288006954 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 990288006955 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 990288006956 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 990288006957 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 990288006958 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 990288006959 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 990288006960 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 990288006961 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 990288006962 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 990288006963 Mg++ binding site [ion binding]; other site 990288006964 putative catalytic motif [active] 990288006965 putative substrate binding site [chemical binding]; other site 990288006966 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 990288006967 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 990288006968 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 990288006969 cell division protein FtsW; Region: ftsW; TIGR02614 990288006970 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 990288006971 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 990288006972 active site 990288006973 homodimer interface [polypeptide binding]; other site 990288006974 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 990288006975 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 990288006976 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 990288006977 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 990288006978 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 990288006979 FAD binding domain; Region: FAD_binding_4; pfam01565 990288006980 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 990288006981 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 990288006982 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 990288006983 ATP-grasp domain; Region: ATP-grasp_4; cl17255 990288006984 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 990288006985 Cell division protein FtsQ; Region: FtsQ; pfam03799 990288006986 cell division protein FtsA; Region: ftsA; TIGR01174 990288006987 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 990288006988 nucleotide binding site [chemical binding]; other site 990288006989 Cell division protein FtsA; Region: FtsA; pfam14450 990288006990 cell division protein FtsZ; Validated; Region: PRK09330 990288006991 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 990288006992 nucleotide binding site [chemical binding]; other site 990288006993 SulA interaction site; other site 990288006994 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 990288006995 homodimer interface [polypeptide binding]; other site 990288006996 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 990288006997 active site pocket [active] 990288006998 phosphoglyceromutase; Provisional; Region: PRK05434 990288006999 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 990288007000 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 990288007001 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 990288007002 Peptidase family M23; Region: Peptidase_M23; pfam01551 990288007003 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 990288007004 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 990288007005 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 990288007006 protein binding site [polypeptide binding]; other site 990288007007 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 990288007008 Catalytic dyad [active] 990288007009 DJ-1 family protein; Region: not_thiJ; TIGR01383 990288007010 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 990288007011 conserved cys residue [active] 990288007012 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 990288007013 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 990288007014 Uncharacterized conserved protein [Function unknown]; Region: COG2127 990288007015 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 990288007016 Clp amino terminal domain; Region: Clp_N; pfam02861 990288007017 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 990288007018 Walker A motif; other site 990288007019 ATP binding site [chemical binding]; other site 990288007020 Walker B motif; other site 990288007021 arginine finger; other site 990288007022 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 990288007023 Walker A motif; other site 990288007024 ATP binding site [chemical binding]; other site 990288007025 Walker B motif; other site 990288007026 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 990288007027 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 990288007028 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 990288007029 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 990288007030 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 990288007031 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 990288007032 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 990288007033 N-terminal domain interface [polypeptide binding]; other site 990288007034 dimer interface [polypeptide binding]; other site 990288007035 substrate binding pocket (H-site) [chemical binding]; other site 990288007036 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 990288007037 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 990288007038 S-adenosylmethionine binding site [chemical binding]; other site 990288007039 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 990288007040 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 990288007041 THF binding site; other site 990288007042 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 990288007043 substrate binding site [chemical binding]; other site 990288007044 THF binding site; other site 990288007045 zinc-binding site [ion binding]; other site 990288007046 lipid-transfer protein; Provisional; Region: PRK07937 990288007047 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 990288007048 G1 box; other site 990288007049 GTP/Mg2+ binding site [chemical binding]; other site 990288007050 G2 box; other site 990288007051 Switch I region; other site 990288007052 G3 box; other site 990288007053 Switch II region; other site 990288007054 G4 box; other site 990288007055 G5 box; other site 990288007056 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 990288007057 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 990288007058 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 990288007059 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 990288007060 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 990288007061 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 990288007062 Ion transport protein; Region: Ion_trans; pfam00520 990288007063 Ion channel; Region: Ion_trans_2; pfam07885 990288007064 TrkA-N domain; Region: TrkA_N; pfam02254 990288007065 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 990288007066 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 990288007067 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 990288007068 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 990288007069 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 990288007070 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 990288007071 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 990288007072 protein binding site [polypeptide binding]; other site 990288007073 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 990288007074 protein binding site [polypeptide binding]; other site 990288007075 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 990288007076 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 990288007077 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 990288007078 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 990288007079 TolB amino-terminal domain; Region: TolB_N; pfam04052 990288007080 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 990288007081 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 990288007082 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 990288007083 gating phenylalanine in ion channel; other site 990288007084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 990288007085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 990288007086 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 990288007087 dimerization interface [polypeptide binding]; other site 990288007088 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 990288007089 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 990288007090 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 990288007091 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 990288007092 GTP1/OBG; Region: GTP1_OBG; pfam01018 990288007093 Obg GTPase; Region: Obg; cd01898 990288007094 G1 box; other site 990288007095 GTP/Mg2+ binding site [chemical binding]; other site 990288007096 Switch I region; other site 990288007097 G2 box; other site 990288007098 G3 box; other site 990288007099 Switch II region; other site 990288007100 G4 box; other site 990288007101 G5 box; other site 990288007102 gamma-glutamyl kinase; Provisional; Region: PRK05429 990288007103 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 990288007104 nucleotide binding site [chemical binding]; other site 990288007105 homotetrameric interface [polypeptide binding]; other site 990288007106 putative phosphate binding site [ion binding]; other site 990288007107 putative allosteric binding site; other site 990288007108 PUA domain; Region: PUA; pfam01472 990288007109 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 990288007110 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 990288007111 ligand binding site [chemical binding]; other site 990288007112 spermidine synthase; Provisional; Region: PRK00811 990288007113 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 990288007114 S-adenosylmethionine binding site [chemical binding]; other site 990288007115 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 990288007116 diaminopimelate decarboxylase; Region: lysA; TIGR01048 990288007117 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 990288007118 active site 990288007119 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 990288007120 substrate binding site [chemical binding]; other site 990288007121 catalytic residues [active] 990288007122 dimer interface [polypeptide binding]; other site 990288007123 argininosuccinate lyase; Provisional; Region: PRK00855 990288007124 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 990288007125 active sites [active] 990288007126 tetramer interface [polypeptide binding]; other site 990288007127 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 990288007128 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 990288007129 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 990288007130 putative active site [active] 990288007131 putative substrate binding site [chemical binding]; other site 990288007132 ATP binding site [chemical binding]; other site 990288007133 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 990288007134 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 990288007135 DNA polymerase I; Provisional; Region: PRK05755 990288007136 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 990288007137 active site 990288007138 metal binding site 1 [ion binding]; metal-binding site 990288007139 putative 5' ssDNA interaction site; other site 990288007140 metal binding site 3; metal-binding site 990288007141 metal binding site 2 [ion binding]; metal-binding site 990288007142 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 990288007143 putative DNA binding site [nucleotide binding]; other site 990288007144 putative metal binding site [ion binding]; other site 990288007145 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 990288007146 active site 990288007147 catalytic site [active] 990288007148 substrate binding site [chemical binding]; other site 990288007149 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 990288007150 active site 990288007151 DNA binding site [nucleotide binding] 990288007152 catalytic site [active] 990288007153 voltage-gated potassium channel; Provisional; Region: PRK10537 990288007154 Ion channel; Region: Ion_trans_2; pfam07885 990288007155 TrkA-N domain; Region: TrkA_N; pfam02254 990288007156 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 990288007157 G1 box; other site 990288007158 GTP/Mg2+ binding site [chemical binding]; other site 990288007159 Switch I region; other site 990288007160 G2 box; other site 990288007161 G3 box; other site 990288007162 Switch II region; other site 990288007163 G4 box; other site 990288007164 G5 box; other site 990288007165 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 990288007166 ResB-like family; Region: ResB; pfam05140 990288007167 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 990288007168 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 990288007169 tetramerization interface [polypeptide binding]; other site 990288007170 active site 990288007171 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 990288007172 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 990288007173 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 990288007174 Soluble P-type ATPase [General function prediction only]; Region: COG4087 990288007175 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 990288007176 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 990288007177 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 990288007178 N- and C-terminal domain interface [polypeptide binding]; other site 990288007179 active site 990288007180 catalytic site [active] 990288007181 metal binding site [ion binding]; metal-binding site 990288007182 carbohydrate binding site [chemical binding]; other site 990288007183 ATP binding site [chemical binding]; other site 990288007184 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 990288007185 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288007186 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288007187 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 990288007188 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 990288007189 Walker A/P-loop; other site 990288007190 ATP binding site [chemical binding]; other site 990288007191 Q-loop/lid; other site 990288007192 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 990288007193 ABC transporter signature motif; other site 990288007194 Walker B; other site 990288007195 D-loop; other site 990288007196 ABC transporter; Region: ABC_tran_2; pfam12848 990288007197 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 990288007198 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288007199 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288007200 Transposase domain (DUF772); Region: DUF772; pfam05598 990288007201 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 990288007202 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 990288007203 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288007204 Peptidase family M23; Region: Peptidase_M23; pfam01551 990288007205 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 990288007206 Peptidase family M23; Region: Peptidase_M23; pfam01551 990288007207 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 990288007208 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 990288007209 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 990288007210 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 990288007211 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 990288007212 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 990288007213 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 990288007214 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 990288007215 phosphopeptide binding site; other site 990288007216 Type II/IV secretion system protein; Region: T2SE; pfam00437 990288007217 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 990288007218 ATP binding site [chemical binding]; other site 990288007219 Walker A motif; other site 990288007220 hexamer interface [polypeptide binding]; other site 990288007221 Walker B motif; other site 990288007222 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 990288007223 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 990288007224 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 990288007225 Predicted methyltransferases [General function prediction only]; Region: COG0313 990288007226 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 990288007227 putative SAM binding site [chemical binding]; other site 990288007228 putative homodimer interface [polypeptide binding]; other site 990288007229 LppC putative lipoprotein; Region: LppC; pfam04348 990288007230 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 990288007231 hypothetical protein; Reviewed; Region: PRK12497 990288007232 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 990288007233 dimer interface [polypeptide binding]; other site 990288007234 active site 990288007235 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 990288007236 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 990288007237 active site 990288007238 nucleotide binding site [chemical binding]; other site 990288007239 HIGH motif; other site 990288007240 KMSKS motif; other site 990288007241 FAD binding domain; Region: FAD_binding_4; pfam01565 990288007242 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 990288007243 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 990288007244 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 990288007245 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 990288007246 putative active site [active] 990288007247 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 990288007248 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 990288007249 ligand binding site [chemical binding]; other site 990288007250 outer membrane porin, OprD family; Region: OprD; pfam03573 990288007251 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 990288007252 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 990288007253 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 990288007254 putative dimerization interface [polypeptide binding]; other site 990288007255 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 990288007256 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 990288007257 FeS/SAM binding site; other site 990288007258 HemN C-terminal domain; Region: HemN_C; pfam06969 990288007259 Uncharacterized conserved protein [Function unknown]; Region: COG1565 990288007260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 990288007261 NAD(P) binding site [chemical binding]; other site 990288007262 active site 990288007263 NifU-like domain; Region: NifU; cl00484 990288007264 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 990288007265 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 990288007266 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 990288007267 FeS/SAM binding site; other site 990288007268 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; cl00233 990288007269 catalytic center binding site [active] 990288007270 ATP binding site [chemical binding]; other site 990288007271 Dihydroneopterin aldolase; Region: FolB; smart00905 990288007272 active site 990288007273 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 990288007274 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 990288007275 binding surface 990288007276 TPR motif; other site 990288007277 UGMP family protein; Validated; Region: PRK09604 990288007278 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 990288007279 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 990288007280 dinuclear metal binding motif [ion binding]; other site 990288007281 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 990288007282 catalytic residues [active] 990288007283 dimer interface [polypeptide binding]; other site 990288007284 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 990288007285 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 990288007286 active site 990288007287 HIGH motif; other site 990288007288 dimer interface [polypeptide binding]; other site 990288007289 KMSKS motif; other site 990288007290 DsrE/DsrF-like family; Region: DrsE; cl00672 990288007291 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 990288007292 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 990288007293 Domain of unknown function (DUF202); Region: DUF202; pfam02656 990288007294 MarC family integral membrane protein; Region: MarC; cl00919 990288007295 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 990288007296 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 990288007297 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 990288007298 dimer interface [polypeptide binding]; other site 990288007299 anticodon binding site; other site 990288007300 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 990288007301 homodimer interface [polypeptide binding]; other site 990288007302 motif 1; other site 990288007303 active site 990288007304 motif 2; other site 990288007305 GAD domain; Region: GAD; pfam02938 990288007306 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 990288007307 motif 3; other site 990288007308 dihydroneopterin triphosphate pyrophosphatase; Provisional; Region: nudB; PRK09438 990288007309 quinolinate synthetase; Provisional; Region: PRK09375 990288007310 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 990288007311 putative acyl-acceptor binding pocket; other site 990288007312 hypothetical protein; Validated; Region: PRK00110 990288007313 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 990288007314 active site 990288007315 putative DNA-binding cleft [nucleotide binding]; other site 990288007316 dimer interface [polypeptide binding]; other site 990288007317 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 990288007318 RuvA N terminal domain; Region: RuvA_N; pfam01330 990288007319 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 990288007320 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 990288007321 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 990288007322 Walker A motif; other site 990288007323 ATP binding site [chemical binding]; other site 990288007324 Walker B motif; other site 990288007325 arginine finger; other site 990288007326 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 990288007327 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 990288007328 active site 990288007329 TolQ protein; Region: tolQ; TIGR02796 990288007330 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 990288007331 TolR protein; Region: tolR; TIGR02801 990288007332 TolA protein; Region: tolA_full; TIGR02794 990288007333 TonB C terminal; Region: TonB_2; pfam13103 990288007334 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 990288007335 TolB amino-terminal domain; Region: TolB_N; pfam04052 990288007336 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 990288007337 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 990288007338 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 990288007339 Ligand Binding Site [chemical binding]; other site 990288007340 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 990288007341 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 990288007342 FeS/SAM binding site; other site 990288007343 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 990288007344 Tetratricopeptide repeat; Region: TPR_6; pfam13174 990288007345 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 990288007346 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 990288007347 ligand binding site [chemical binding]; other site 990288007348 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 990288007349 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 990288007350 domain interfaces; other site 990288007351 active site 990288007352 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 990288007353 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 990288007354 active site 990288007355 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 990288007356 dimer interface [polypeptide binding]; other site 990288007357 active site 990288007358 Schiff base residues; other site 990288007359 EAL domain; Region: EAL; pfam00563 990288007360 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 990288007361 benzoate transport; Region: 2A0115; TIGR00895 990288007362 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288007363 putative substrate translocation pore; other site 990288007364 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288007365 Haemolysin-III related; Region: HlyIII; cl03831 990288007366 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 990288007367 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 990288007368 metal-binding site [ion binding] 990288007369 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 990288007370 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 990288007371 metal-binding site [ion binding] 990288007372 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 990288007373 Soluble P-type ATPase [General function prediction only]; Region: COG4087 990288007374 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 990288007375 metal-binding site [ion binding] 990288007376 ribonuclease G; Provisional; Region: PRK11712 990288007377 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 990288007378 homodimer interface [polypeptide binding]; other site 990288007379 oligonucleotide binding site [chemical binding]; other site 990288007380 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 990288007381 active site 990288007382 dimer interface [polypeptide binding]; other site 990288007383 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 990288007384 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 990288007385 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 990288007386 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 990288007387 active site 990288007388 (T/H)XGH motif; other site 990288007389 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 990288007390 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 990288007391 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 990288007392 intersubunit interface [polypeptide binding]; other site 990288007393 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 990288007394 putative acyl-acceptor binding pocket; other site 990288007395 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 990288007396 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 990288007397 putative dimer interface [polypeptide binding]; other site 990288007398 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 990288007399 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 990288007400 trmE is a tRNA modification GTPase; Region: trmE; cd04164 990288007401 G1 box; other site 990288007402 GTP/Mg2+ binding site [chemical binding]; other site 990288007403 Switch I region; other site 990288007404 G2 box; other site 990288007405 Switch II region; other site 990288007406 G3 box; other site 990288007407 G4 box; other site 990288007408 G5 box; other site 990288007409 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 990288007410 membrane protein insertase; Provisional; Region: PRK01318 990288007411 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 990288007412 Haemolytic domain; Region: Haemolytic; pfam01809 990288007413 Ribonuclease P; Region: Ribonuclease_P; pfam00825 990288007414 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 990288007415 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 990288007416 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 990288007417 Walker A/P-loop; other site 990288007418 ATP binding site [chemical binding]; other site 990288007419 Q-loop/lid; other site 990288007420 ABC transporter signature motif; other site 990288007421 Walker B; other site 990288007422 D-loop; other site 990288007423 H-loop/switch region; other site 990288007424 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 990288007425 Permease; Region: Permease; pfam02405 990288007426 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 990288007427 mce related protein; Region: MCE; pfam02470 990288007428 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 990288007429 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 990288007430 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 990288007431 Walker A/P-loop; other site 990288007432 ATP binding site [chemical binding]; other site 990288007433 Q-loop/lid; other site 990288007434 ABC transporter signature motif; other site 990288007435 Walker B; other site 990288007436 D-loop; other site 990288007437 H-loop/switch region; other site 990288007438 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]; Region: COG1188 990288007439 RNA binding surface [nucleotide binding]; other site 990288007440 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 990288007441 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 990288007442 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 990288007443 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 990288007444 active site 990288007445 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 990288007446 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 990288007447 Sporulation related domain; Region: SPOR; pfam05036 990288007448 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 990288007449 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 990288007450 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 990288007451 active site 990288007452 HIGH motif; other site 990288007453 nucleotide binding site [chemical binding]; other site 990288007454 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 990288007455 KMSK motif region; other site 990288007456 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 990288007457 tRNA binding surface [nucleotide binding]; other site 990288007458 anticodon binding site; other site 990288007459 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288007460 putative substrate translocation pore; other site 990288007461 Major Facilitator Superfamily; Region: MFS_1; pfam07690 990288007462 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288007463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 990288007464 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 990288007465 dimerization interface [polypeptide binding]; other site 990288007466 HemK family putative methylases; Region: hemK_fam; TIGR00536 990288007467 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 990288007468 S-adenosylmethionine binding site [chemical binding]; other site 990288007469 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 990288007470 active site 990288007471 putative catalytic site [active] 990288007472 phosphate binding site A [ion binding]; other site 990288007473 DNA binding site [nucleotide binding] 990288007474 metal binding site A [ion binding]; metal-binding site 990288007475 putative AP binding site [nucleotide binding]; other site 990288007476 putative metal binding site B [ion binding]; other site 990288007477 phosphate binding site B [ion binding]; other site 990288007478 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 990288007479 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 990288007480 putative glutathione S-transferase; Provisional; Region: PRK10357 990288007481 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 990288007482 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 990288007483 N-terminal domain interface [polypeptide binding]; other site 990288007484 dimer interface [polypeptide binding]; other site 990288007485 substrate binding pocket (H-site) [chemical binding]; other site 990288007486 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 990288007487 putative catalytic site [active] 990288007488 putative phosphate binding site [ion binding]; other site 990288007489 active site 990288007490 metal binding site A [ion binding]; metal-binding site 990288007491 DNA binding site [nucleotide binding] 990288007492 putative AP binding site [nucleotide binding]; other site 990288007493 putative metal binding site B [ion binding]; other site 990288007494 ferrochelatase; Reviewed; Region: hemH; PRK00035 990288007495 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 990288007496 C-terminal domain interface [polypeptide binding]; other site 990288007497 active site 990288007498 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 990288007499 active site 990288007500 N-terminal domain interface [polypeptide binding]; other site 990288007501 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 990288007502 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 990288007503 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 990288007504 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 990288007505 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 990288007506 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 990288007507 shikimate binding site; other site 990288007508 NAD(P) binding site [chemical binding]; other site 990288007509 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 990288007510 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 990288007511 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 990288007512 Walker A motif; other site 990288007513 ATP binding site [chemical binding]; other site 990288007514 Walker B motif; other site 990288007515 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 990288007516 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 990288007517 dimer interface [polypeptide binding]; other site 990288007518 phosphorylation site [posttranslational modification] 990288007519 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288007520 ATP binding site [chemical binding]; other site 990288007521 Mg2+ binding site [ion binding]; other site 990288007522 G-X-G motif; other site 990288007523 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 990288007524 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 990288007525 active site 990288007526 phosphorylation site [posttranslational modification] 990288007527 intermolecular recognition site; other site 990288007528 dimerization interface [polypeptide binding]; other site 990288007529 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 990288007530 Walker A motif; other site 990288007531 ATP binding site [chemical binding]; other site 990288007532 Walker B motif; other site 990288007533 arginine finger; other site 990288007534 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 990288007535 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 990288007536 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 990288007537 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 990288007538 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 990288007539 CoA-binding site [chemical binding]; other site 990288007540 ATP-binding [chemical binding]; other site 990288007541 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 990288007542 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 990288007543 AMP binding site [chemical binding]; other site 990288007544 metal binding site [ion binding]; metal-binding site 990288007545 active site 990288007546 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 990288007547 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 990288007548 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 990288007549 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 990288007550 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 990288007551 N-acetyl-D-glucosamine binding site [chemical binding]; other site 990288007552 catalytic residue [active] 990288007553 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 990288007554 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 990288007555 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 990288007556 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 990288007557 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 990288007558 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 990288007559 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 990288007560 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 990288007561 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 990288007562 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 990288007563 carboxyltransferase (CT) interaction site; other site 990288007564 biotinylation site [posttranslational modification]; other site 990288007565 Dehydroquinase class II; Region: DHquinase_II; pfam01220 990288007566 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 990288007567 trimer interface [polypeptide binding]; other site 990288007568 active site 990288007569 dimer interface [polypeptide binding]; other site 990288007570 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 990288007571 dimer interface [polypeptide binding]; other site 990288007572 FMN binding site [chemical binding]; other site 990288007573 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 990288007574 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 990288007575 nucleotide binding site/active site [active] 990288007576 HIT family signature motif; other site 990288007577 catalytic residue [active] 990288007578 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 990288007579 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 990288007580 inhibitor-cofactor binding pocket; inhibition site 990288007581 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288007582 catalytic residue [active] 990288007583 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 990288007584 thiamine phosphate binding site [chemical binding]; other site 990288007585 active site 990288007586 pyrophosphate binding site [ion binding]; other site 990288007587 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 990288007588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 990288007589 NAD(P) binding site [chemical binding]; other site 990288007590 active site 990288007591 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 990288007592 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 990288007593 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 990288007594 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 990288007595 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 990288007596 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 990288007597 Amidohydrolase; Region: Amidohydro_4; pfam13147 990288007598 active site 990288007599 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 990288007600 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 990288007601 active site 990288007602 purine riboside binding site [chemical binding]; other site 990288007603 Purine nucleoside permease (NUP); Region: NUP; cl17832 990288007604 Transposase domain (DUF772); Region: DUF772; pfam05598 990288007605 Integrase core domain; Region: rve; pfam00665 990288007606 DDE superfamily endonuclease; Region: DDE_3; pfam13358 990288007607 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 990288007608 Transposase domain (DUF772); Region: DUF772; pfam05598 990288007609 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288007610 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 990288007611 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 990288007612 Walker A motif; other site 990288007613 ATP binding site [chemical binding]; other site 990288007614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288007615 Integrase core domain; Region: rve; pfam00665 990288007616 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288007617 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 990288007618 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288007619 Winged helix-turn helix; Region: HTH_29; pfam13551 990288007620 Winged helix-turn helix; Region: HTH_33; pfam13592 990288007621 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 990288007622 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 990288007623 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 990288007624 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 990288007625 Transposase domain (DUF772); Region: DUF772; pfam05598 990288007626 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 990288007627 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 990288007628 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 990288007629 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 990288007630 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 990288007631 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 990288007632 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 990288007633 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 990288007634 Amidohydrolase ring-opening protein (Amido_AtzD_TrzD); Region: Amido_AtzD_TrzD; cl17559 990288007635 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 990288007636 XdhC Rossmann domain; Region: XdhC_C; pfam13478 990288007637 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 990288007638 amidase; Provisional; Region: PRK09201 990288007639 Amidase; Region: Amidase; cl11426 990288007640 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 990288007641 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 990288007642 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 990288007643 Transcriptional regulator [Transcription]; Region: LysR; COG0583 990288007644 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 990288007645 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 990288007646 dimerization interface [polypeptide binding]; other site 990288007647 Transposase domain (DUF772); Region: DUF772; pfam05598 990288007648 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288007649 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288007650 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 990288007651 Catalytic site [active] 990288007652 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 990288007653 integron integrase; Region: integrase_gron; TIGR02249 990288007654 active site 990288007655 DNA binding site [nucleotide binding] 990288007656 Int/Topo IB signature motif; other site 990288007657 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 990288007658 IHF dimer interface [polypeptide binding]; other site 990288007659 IHF - DNA interface [nucleotide binding]; other site 990288007660 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 990288007661 IHF - DNA interface [nucleotide binding]; other site 990288007662 IHF dimer interface [polypeptide binding]; other site 990288007663 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 990288007664 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 990288007665 active site 990288007666 Fe-S cluster binding site [ion binding]; other site 990288007667 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 990288007668 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 990288007669 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 990288007670 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 990288007671 PLD-like domain; Region: PLDc_2; pfam13091 990288007672 putative active site [active] 990288007673 catalytic site [active] 990288007674 Winged helix-turn helix; Region: HTH_29; pfam13551 990288007675 Helix-turn-helix domain; Region: HTH_28; pfam13518 990288007676 Homeodomain-like domain; Region: HTH_32; pfam13565 990288007677 Winged helix-turn helix; Region: HTH_33; pfam13592 990288007678 DDE superfamily endonuclease; Region: DDE_3; pfam13358 990288007679 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 990288007680 HipA N-terminal domain; Region: Couple_hipA; pfam13657 990288007681 HipA-like N-terminal domain; Region: HipA_N; pfam07805 990288007682 HipA-like C-terminal domain; Region: HipA_C; pfam07804 990288007683 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 990288007684 Family description; Region: UvrD_C_2; pfam13538 990288007685 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 990288007686 ssDNA binding site; other site 990288007687 generic binding surface II; other site 990288007688 DEAD-like helicases superfamily; Region: DEXDc; smart00487 990288007689 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 990288007690 ATP binding site [chemical binding]; other site 990288007691 putative Mg++ binding site [ion binding]; other site 990288007692 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 990288007693 nucleotide binding region [chemical binding]; other site 990288007694 ATP-binding site [chemical binding]; other site 990288007695 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 990288007696 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 990288007697 Coenzyme A binding pocket [chemical binding]; other site 990288007698 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 990288007699 Archaeal ATPase; Region: Arch_ATPase; pfam01637 990288007700 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 990288007701 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 990288007702 metal binding site [ion binding]; metal-binding site 990288007703 active site 990288007704 I-site; other site 990288007705 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 990288007706 Putative transposase; Region: Y2_Tnp; pfam04986 990288007707 DDE superfamily endonuclease; Region: DDE_3; pfam13358 990288007708 Winged helix-turn helix; Region: HTH_29; pfam13551 990288007709 Winged helix-turn helix; Region: HTH_33; pfam13592 990288007710 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 990288007711 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 990288007712 helix_turn_helix, Arsenical Resistance Operon Repressor; Region: HTH_ARSR; smart00418 990288007713 putative DNA binding site [nucleotide binding]; other site 990288007714 dimerization interface [polypeptide binding]; other site 990288007715 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 990288007716 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 990288007717 homodimer interface [polypeptide binding]; other site 990288007718 substrate-cofactor binding pocket; other site 990288007719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288007720 catalytic residue [active] 990288007721 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 990288007722 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 990288007723 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288007724 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288007725 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 990288007726 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 990288007727 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 990288007728 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 990288007729 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 990288007730 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 990288007731 DNA binding residues [nucleotide binding] 990288007732 Cation efflux family; Region: Cation_efflux; cl00316 990288007733 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 990288007734 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 990288007735 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 990288007736 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 990288007737 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 990288007738 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 990288007739 HlyD family secretion protein; Region: HlyD_3; pfam13437 990288007740 Outer membrane efflux protein; Region: OEP; pfam02321 990288007741 Outer membrane efflux protein; Region: OEP; pfam02321 990288007742 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288007743 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288007744 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 990288007745 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 990288007746 metal-binding site [ion binding] 990288007747 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 990288007748 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 990288007749 metal-binding site [ion binding] 990288007750 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 990288007751 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 990288007752 motif II; other site 990288007753 Domain of unknown function DUF302; Region: DUF302; pfam03625 990288007754 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 990288007755 metal-binding site [ion binding] 990288007756 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 990288007757 catalytic residues [active] 990288007758 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 990288007759 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 990288007760 Major Facilitator Superfamily; Region: MFS_1; pfam07690 990288007761 putative substrate translocation pore; other site 990288007762 Protein of unknown function (DUF330); Region: DUF330; pfam03886 990288007763 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 990288007764 mce related protein; Region: MCE; pfam02470 990288007765 mce related protein; Region: MCE; pfam02470 990288007766 mce related protein; Region: MCE; pfam02470 990288007767 Paraquat-inducible protein A; Region: PqiA; pfam04403 990288007768 Paraquat-inducible protein A; Region: PqiA; pfam04403 990288007769 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 990288007770 Sel1-like repeats; Region: SEL1; smart00671 990288007771 TniQ; Region: TniQ; pfam06527 990288007772 AAA domain; Region: AAA_22; pfam13401 990288007773 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 990288007774 Walker A motif; other site 990288007775 ATP binding site [chemical binding]; other site 990288007776 Bacterial TniB protein; Region: TniB; pfam05621 990288007777 Walker B motif; other site 990288007778 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 990288007779 Integrase core domain; Region: rve; pfam00665 990288007780 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 990288007781 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 990288007782 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288007783 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288007784 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288007785 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 990288007786 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 990288007787 Walker A motif; other site 990288007788 ATP binding site [chemical binding]; other site 990288007789 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288007790 Integrase core domain; Region: rve; pfam00665 990288007791 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288007792 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 990288007793 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 990288007794 Coenzyme A binding pocket [chemical binding]; other site 990288007795 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 990288007796 Uncharacterized conserved protein [Function unknown]; Region: COG2128 990288007797 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 990288007798 MarR family; Region: MarR_2; pfam12802 990288007799 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 990288007800 dimerization interface [polypeptide binding]; other site 990288007801 putative DNA binding site [nucleotide binding]; other site 990288007802 putative Zn2+ binding site [ion binding]; other site 990288007803 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 990288007804 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 990288007805 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 990288007806 N-acetyl-D-glucosamine binding site [chemical binding]; other site 990288007807 catalytic residue [active] 990288007808 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 990288007809 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 990288007810 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 990288007811 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 990288007812 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 990288007813 DHH family; Region: DHH; pfam01368 990288007814 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 990288007815 DNA ligase, NAD-dependent; Region: dnlj; TIGR00575 990288007816 nucleotide binding pocket [chemical binding]; other site 990288007817 K-X-D-G motif; other site 990288007818 catalytic site [active] 990288007819 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 990288007820 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 990288007821 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 990288007822 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 990288007823 DNA binding site [nucleotide binding] 990288007824 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 990288007825 Dimer interface [polypeptide binding]; other site 990288007826 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 990288007827 S-adenosylmethionine binding site [chemical binding]; other site 990288007828 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 990288007829 active site 990288007830 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 990288007831 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 990288007832 Mg2+ binding site [ion binding]; other site 990288007833 G-X-G motif; other site 990288007834 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 990288007835 anchoring element; other site 990288007836 dimer interface [polypeptide binding]; other site 990288007837 ATP binding site [chemical binding]; other site 990288007838 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 990288007839 active site 990288007840 putative metal-binding site [ion binding]; other site 990288007841 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 990288007842 DNA gyrase subunit A; Validated; Region: PRK05560 990288007843 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 990288007844 CAP-like domain; other site 990288007845 active site 990288007846 primary dimer interface [polypeptide binding]; other site 990288007847 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 990288007848 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 990288007849 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 990288007850 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 990288007851 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 990288007852 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 990288007853 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 990288007854 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 990288007855 dimer interface [polypeptide binding]; other site 990288007856 ssDNA binding site [nucleotide binding]; other site 990288007857 tetramer (dimer of dimers) interface [polypeptide binding]; other site 990288007858 SprT homologues; Region: SprT; cl01182 990288007859 SprT-like family; Region: SprT-like; pfam10263 990288007860 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 990288007861 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 990288007862 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 990288007863 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 990288007864 active site 990288007865 DNA binding site [nucleotide binding] 990288007866 Int/Topo IB signature motif; other site 990288007867 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 990288007868 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 990288007869 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 990288007870 ATP binding site [chemical binding]; other site 990288007871 putative Mg++ binding site [ion binding]; other site 990288007872 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 990288007873 ATP-binding site [chemical binding]; other site 990288007874 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 990288007875 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288007876 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 990288007877 Walker A motif; other site 990288007878 ATP binding site [chemical binding]; other site 990288007879 Walker B motif; other site 990288007880 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288007881 Integrase core domain; Region: rve; pfam00665 990288007882 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 990288007883 ATP binding site [chemical binding]; other site 990288007884 putative Mg++ binding site [ion binding]; other site 990288007885 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 990288007886 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 990288007887 nucleotide binding region [chemical binding]; other site 990288007888 ATP-binding site [chemical binding]; other site 990288007889 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 990288007890 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 990288007891 putative active site [active] 990288007892 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 990288007893 HNH endonuclease; Region: HNH_2; pfam13391 990288007894 Methyltransferase domain; Region: Methyltransf_26; pfam13659 990288007895 Methyltransferase domain; Region: Methyltransf_27; pfam13708 990288007896 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 990288007897 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 990288007898 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 990288007899 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 990288007900 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 990288007901 Transposase; Region: DEDD_Tnp_IS110; pfam01548 990288007902 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 990288007903 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 990288007904 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 990288007905 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 990288007906 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 990288007907 transposase/IS protein; Provisional; Region: PRK09183 990288007908 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 990288007909 Walker A motif; other site 990288007910 ATP binding site [chemical binding]; other site 990288007911 Walker B motif; other site 990288007912 Homeodomain-like domain; Region: HTH_23; pfam13384 990288007913 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288007914 Integrase core domain; Region: rve; pfam00665 990288007915 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 990288007916 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 990288007917 putative active site [active] 990288007918 putative NTP binding site [chemical binding]; other site 990288007919 putative nucleic acid binding site [nucleotide binding]; other site 990288007920 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 990288007921 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 990288007922 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 990288007923 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 990288007924 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 990288007925 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 990288007926 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 990288007927 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288007928 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288007929 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 990288007930 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 990288007931 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 990288007932 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288007933 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288007934 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 990288007935 Transposase domain (DUF772); Region: DUF772; pfam05598 990288007936 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288007937 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288007938 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288007939 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 990288007940 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 990288007941 Walker A motif; other site 990288007942 ATP binding site [chemical binding]; other site 990288007943 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288007944 Integrase core domain; Region: rve; pfam00665 990288007945 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288007946 Transposase domain (DUF772); Region: DUF772; pfam05598 990288007947 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288007948 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288007949 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 990288007950 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 990288007951 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 990288007952 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 990288007953 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 990288007954 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 990288007955 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 990288007956 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 990288007957 putative active site [active] 990288007958 putative NTP binding site [chemical binding]; other site 990288007959 putative nucleic acid binding site [nucleotide binding]; other site 990288007960 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 990288007961 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288007962 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288007963 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 990288007964 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 990288007965 inhibitor-cofactor binding pocket; inhibition site 990288007966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 990288007967 catalytic residue [active] 990288007968 Transposase, Mutator family; Region: Transposase_mut; pfam00872 990288007969 MULE transposase domain; Region: MULE; pfam10551 990288007970 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288007971 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288007972 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 990288007973 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 990288007974 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 990288007975 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 990288007976 Transposase domain (DUF772); Region: DUF772; pfam05598 990288007977 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 990288007978 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 990288007979 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 990288007980 Walker A motif; other site 990288007981 ATP binding site [chemical binding]; other site 990288007982 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288007983 Integrase core domain; Region: rve; pfam00665 990288007984 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 990288007985 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288007986 Transposase, Mutator family; Region: Transposase_mut; pfam00872 990288007987 MULE transposase domain; Region: MULE; pfam10551 990288007988 Helix-turn-helix domain; Region: HTH_28; pfam13518 990288007989 Integrase core domain; Region: rve; pfam00665 990288007990 Integrase core domain; Region: rve_3; pfam13683 990288007991 Transposase domain (DUF772); Region: DUF772; pfam05598 990288007992 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288007993 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288007994 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 990288007995 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 990288007996 Walker A motif; other site 990288007997 ATP binding site [chemical binding]; other site 990288007998 Walker B motif; other site 990288007999 Transposase domain (DUF772); Region: DUF772; pfam05598 990288008000 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 990288008001 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 990288008002 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 990288008003 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 990288008004 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 990288008005 AAA domain; Region: AAA_14; pfam13173 990288008006 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 990288008007 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 990288008008 P loop; other site 990288008009 Nucleotide binding site [chemical binding]; other site 990288008010 DTAP/Switch II; other site 990288008011 Switch I; other site 990288008012 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 990288008013 Magnesium ion binding site [ion binding]; other site 990288008014 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 990288008015 ParB-like nuclease domain; Region: ParBc; pfam02195 990288008016 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 990288008017 dimer interface [polypeptide binding]; other site 990288008018 putative radical transfer pathway; other site 990288008019 diiron center [ion binding]; other site 990288008020 tyrosyl radical; other site 990288008021 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 990288008022 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 990288008023 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 990288008024 non-specific DNA binding site [nucleotide binding]; other site 990288008025 salt bridge; other site 990288008026 sequence-specific DNA binding site [nucleotide binding]; other site 990288008027 HipA N-terminal domain; Region: Couple_hipA; pfam13657 990288008028 HipA-like N-terminal domain; Region: HipA_N; pfam07805 990288008029 HipA-like C-terminal domain; Region: HipA_C; pfam07804 990288008030 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 990288008031 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 990288008032 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 990288008033 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 990288008034 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 990288008035 Transposase; Region: DEDD_Tnp_IS110; pfam01548 990288008036 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 990288008037 potential frameshift: common BLAST hit: gi|198283446|ref|YP_002219767.1| transposase IS66 990288008038 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 990288008039 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 990288008040 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 990288008041 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 990288008042 Transposase, Mutator family; Region: Transposase_mut; pfam00872 990288008043 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 990288008044 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 990288008045 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 990288008046 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 990288008047 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 990288008048 Transposase IS200 like; Region: Y1_Tnp; pfam01797 990288008049 Replication protein C (RepC); Region: RepC; pfam06504 990288008050 AAA domain; Region: AAA_25; pfam13481 990288008051 Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent; Region: repA; cd01125 990288008052 Walker A motif; other site 990288008053 NTP binding site [chemical binding]; other site 990288008054 hexamer interface [polypeptide binding]; other site 990288008055 Walker B motif; other site 990288008056 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 990288008057 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 990288008058 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 990288008059 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 990288008060 IHF - DNA interface [nucleotide binding]; other site 990288008061 IHF dimer interface [polypeptide binding]; other site 990288008062 Conjugal transfer protein TraD; Region: TraD; cl05753 990288008063 MobA/MobL family; Region: MobA_MobL; pfam03389 990288008064 DsrE/DsrF-like family; Region: DrsE; cl00672 990288008065 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 990288008066 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 990288008067 multiple promoter invertase; Provisional; Region: mpi; PRK13413 990288008068 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 990288008069 catalytic residues [active] 990288008070 catalytic nucleophile [active] 990288008071 Presynaptic Site I dimer interface [polypeptide binding]; other site 990288008072 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 990288008073 Synaptic Flat tetramer interface [polypeptide binding]; other site 990288008074 Synaptic Site I dimer interface [polypeptide binding]; other site 990288008075 DNA binding site [nucleotide binding] 990288008076 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 990288008077 DNA-binding interface [nucleotide binding]; DNA binding site 990288008078 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 990288008079 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 990288008080 P-loop; other site 990288008081 Magnesium ion binding site [ion binding]; other site 990288008082 ParG; Region: ParG; pfam09274 990288008083 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 990288008084 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 990288008085 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 990288008086 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 990288008087 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 990288008088 Methyltransferase domain; Region: Methyltransf_26; pfam13659 990288008089 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 990288008090 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 990288008091 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 990288008092 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 990288008093 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 990288008094 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 990288008095 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 990288008096 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 990288008097 P loop; other site 990288008098 Nucleotide binding site [chemical binding]; other site 990288008099 DTAP/Switch II; other site 990288008100 Switch I; other site 990288008101 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 990288008102 DTAP/Switch II; other site 990288008103 Switch I; other site 990288008104 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 990288008105 Low molecular weight phosphatase family; Region: LMWPc; cd00115 990288008106 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 990288008107 active site 990288008108 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 990288008109 dimerization interface [polypeptide binding]; other site 990288008110 putative DNA binding site [nucleotide binding]; other site 990288008111 putative Zn2+ binding site [ion binding]; other site 990288008112 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 990288008113 multiple promoter invertase; Provisional; Region: mpi; PRK13413 990288008114 catalytic residues [active] 990288008115 catalytic nucleophile [active] 990288008116 Presynaptic Site I dimer interface [polypeptide binding]; other site 990288008117 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 990288008118 Synaptic Flat tetramer interface [polypeptide binding]; other site 990288008119 Synaptic Site I dimer interface [polypeptide binding]; other site 990288008120 DNA binding site [nucleotide binding] 990288008121 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 990288008122 DNA-binding interface [nucleotide binding]; DNA binding site 990288008123 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 990288008124 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 990288008125 IHF - DNA interface [nucleotide binding]; other site 990288008126 IHF dimer interface [polypeptide binding]; other site 990288008127 Conjugal transfer protein TraD; Region: TraD; cl05753 990288008128 MobA/MobL family; Region: MobA_MobL; pfam03389 990288008129 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 990288008130 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 990288008131 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 990288008132 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 990288008133 Transposase; Region: DDE_Tnp_ISL3; pfam01610 990288008134 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 990288008135 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 990288008136 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 990288008137 DNA-binding site [nucleotide binding]; DNA binding site 990288008138 UTRA domain; Region: UTRA; pfam07702 990288008139 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 990288008140 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 990288008141 catalytic residues [active] 990288008142 catalytic nucleophile [active] 990288008143 Presynaptic Site I dimer interface [polypeptide binding]; other site 990288008144 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 990288008145 Synaptic Flat tetramer interface [polypeptide binding]; other site 990288008146 Synaptic Site I dimer interface [polypeptide binding]; other site 990288008147 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 990288008148 DNA-binding interface [nucleotide binding]; DNA binding site 990288008149 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 990288008150 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 990288008151 putative active site [active] 990288008152 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 990288008153 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 990288008154 ParA-like protein; Provisional; Region: PHA02518 990288008155 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 990288008156 P-loop; other site 990288008157 Magnesium ion binding site [ion binding]; other site