-- dump date 20140620_072301 -- class Genbank::misc_feature -- table misc_feature_note -- id note 744872000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 744872000002 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 744872000003 Walker A motif; other site 744872000004 ATP binding site [chemical binding]; other site 744872000005 Walker B motif; other site 744872000006 arginine finger; other site 744872000007 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 744872000008 DnaA box-binding interface [nucleotide binding]; other site 744872000009 DNA polymerase III subunit beta; Provisional; Region: PRK14940 744872000010 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 744872000011 putative DNA binding surface [nucleotide binding]; other site 744872000012 dimer interface [polypeptide binding]; other site 744872000013 beta-clamp/clamp loader binding surface; other site 744872000014 beta-clamp/translesion DNA polymerase binding surface; other site 744872000015 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 744872000016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872000017 Walker A/P-loop; other site 744872000018 ATP binding site [chemical binding]; other site 744872000019 Q-loop/lid; other site 744872000020 Protein of unknown function (DUF721); Region: DUF721; pfam05258 744872000021 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 744872000022 Ribonuclease P; Region: Ribonuclease_P; pfam00825 744872000023 membrane protein insertase; Provisional; Region: PRK01318 744872000024 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 744872000025 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 744872000026 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 744872000027 G-X-X-G motif; other site 744872000028 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 744872000029 RxxxH motif; other site 744872000030 flagellin; Provisional; Region: PRK12804 744872000031 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 744872000032 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 744872000033 Predicted methyltransferases [General function prediction only]; Region: COG0313 744872000034 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 744872000035 putative SAM binding site [chemical binding]; other site 744872000036 putative homodimer interface [polypeptide binding]; other site 744872000037 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 744872000038 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 744872000039 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 744872000040 active site 744872000041 NAD binding site [chemical binding]; other site 744872000042 metal binding site [ion binding]; metal-binding site 744872000043 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 744872000044 HDOD domain; Region: HDOD; pfam08668 744872000045 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872000046 Zn2+ binding site [ion binding]; other site 744872000047 Mg2+ binding site [ion binding]; other site 744872000048 AAA domain; Region: AAA_32; pfam13654 744872000049 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 744872000050 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 744872000051 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 744872000052 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872000053 dimer interface [polypeptide binding]; other site 744872000054 putative CheW interface [polypeptide binding]; other site 744872000055 Uncharacterized conserved protein [Function unknown]; Region: COG0327 744872000056 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 744872000057 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 744872000058 lipoprotein signal peptidase; Provisional; Region: PRK14787 744872000059 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 744872000060 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 744872000061 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 744872000062 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 744872000063 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 744872000064 NAD(P) binding pocket [chemical binding]; other site 744872000065 hybrid cluster protein; Provisional; Region: PRK05290 744872000066 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 744872000067 ACS interaction site; other site 744872000068 CODH interaction site; other site 744872000069 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 744872000070 hybrid metal cluster; other site 744872000071 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 744872000072 active site 744872000073 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 744872000074 nudix motif; other site 744872000075 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 744872000076 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 744872000077 ligand binding site [chemical binding]; other site 744872000078 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872000079 HAMP domain; Region: HAMP; pfam00672 744872000080 dimerization interface [polypeptide binding]; other site 744872000081 Histidine kinase; Region: His_kinase; pfam06580 744872000082 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872000083 ATP binding site [chemical binding]; other site 744872000084 Mg2+ binding site [ion binding]; other site 744872000085 G-X-G motif; other site 744872000086 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 744872000087 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872000088 active site 744872000089 phosphorylation site [posttranslational modification] 744872000090 intermolecular recognition site; other site 744872000091 dimerization interface [polypeptide binding]; other site 744872000092 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872000093 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872000094 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 744872000095 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 744872000096 putative ligand binding site [chemical binding]; other site 744872000097 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 744872000098 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 744872000099 putative ligand binding site [chemical binding]; other site 744872000100 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 744872000101 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 744872000102 Walker A/P-loop; other site 744872000103 ATP binding site [chemical binding]; other site 744872000104 Q-loop/lid; other site 744872000105 ABC transporter signature motif; other site 744872000106 Walker B; other site 744872000107 D-loop; other site 744872000108 H-loop/switch region; other site 744872000109 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872000110 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872000111 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872000112 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872000113 TM-ABC transporter signature motif; other site 744872000114 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 744872000115 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 744872000116 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 744872000117 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 744872000118 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 744872000119 Peptidase family M23; Region: Peptidase_M23; pfam01551 744872000120 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 744872000121 Protein of unknown function (DUF327); Region: DUF327; pfam03885 744872000122 PSP1 C-terminal conserved region; Region: PSP1; cl00770 744872000123 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 744872000124 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 744872000125 S-adenosylmethionine binding site [chemical binding]; other site 744872000126 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 744872000127 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 744872000128 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 744872000129 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 744872000130 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 744872000131 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872000132 Zn2+ binding site [ion binding]; other site 744872000133 Mg2+ binding site [ion binding]; other site 744872000134 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 744872000135 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 744872000136 dimerization interface [polypeptide binding]; other site 744872000137 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872000138 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872000139 dimer interface [polypeptide binding]; other site 744872000140 putative CheW interface [polypeptide binding]; other site 744872000141 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 744872000142 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 744872000143 nucleotide binding site [chemical binding]; other site 744872000144 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 744872000145 active site 744872000146 catalytic triad [active] 744872000147 putative pectinesterase; Region: PLN02432; cl01911 744872000148 Amb_all domain; Region: Amb_all; smart00656 744872000149 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872000150 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 744872000151 DNA binding site [nucleotide binding] 744872000152 domain linker motif; other site 744872000153 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 744872000154 ligand binding site [chemical binding]; other site 744872000155 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 744872000156 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 744872000157 putative N- and C-terminal domain interface [polypeptide binding]; other site 744872000158 putative active site [active] 744872000159 MgATP binding site [chemical binding]; other site 744872000160 catalytic site [active] 744872000161 metal binding site [ion binding]; metal-binding site 744872000162 putative carbohydrate binding site [chemical binding]; other site 744872000163 DinB superfamily; Region: DinB_2; pfam12867 744872000164 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 744872000165 active site 744872000166 8-oxo-dGMP binding site [chemical binding]; other site 744872000167 nudix motif; other site 744872000168 metal binding site [ion binding]; metal-binding site 744872000169 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872000170 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872000171 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 744872000172 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872000173 dimer interface [polypeptide binding]; other site 744872000174 conserved gate region; other site 744872000175 putative PBP binding loops; other site 744872000176 ABC-ATPase subunit interface; other site 744872000177 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872000178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872000179 ABC-ATPase subunit interface; other site 744872000180 putative PBP binding loops; other site 744872000181 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 744872000182 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 744872000183 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872000184 Zn2+ binding site [ion binding]; other site 744872000185 Mg2+ binding site [ion binding]; other site 744872000186 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872000187 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 744872000188 Part of AAA domain; Region: AAA_19; pfam13245 744872000189 Family description; Region: UvrD_C_2; pfam13538 744872000190 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 744872000191 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 744872000192 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 744872000193 D-mannonate oxidoreductase; Provisional; Region: PRK08277 744872000194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 744872000195 NAD(P) binding site [chemical binding]; other site 744872000196 active site 744872000197 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 744872000198 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 744872000199 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 744872000200 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 744872000201 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 744872000202 substrate binding site [chemical binding]; other site 744872000203 ATP binding site [chemical binding]; other site 744872000204 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cl04227 744872000205 carbohydrate binding site [chemical binding]; other site 744872000206 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 744872000207 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 744872000208 Ca binding site [ion binding]; other site 744872000209 active site 744872000210 catalytic site [active] 744872000211 Glycosyl hydrolase family 79, N-terminal domain; Region: Glyco_hydro_79n; pfam03662 744872000212 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 744872000213 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 744872000214 active site 744872000215 catalytic site [active] 744872000216 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 744872000217 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 744872000218 active site 744872000219 NAD binding site [chemical binding]; other site 744872000220 metal binding site [ion binding]; metal-binding site 744872000221 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 744872000222 Histidine kinase; Region: HisKA_2; pfam07568 744872000223 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872000224 ATP binding site [chemical binding]; other site 744872000225 Mg2+ binding site [ion binding]; other site 744872000226 G-X-G motif; other site 744872000227 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 744872000228 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 744872000229 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 744872000230 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 744872000231 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 744872000232 Transposase domain (DUF772); Region: DUF772; pfam05598 744872000233 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872000234 Response regulator receiver domain; Region: Response_reg; pfam00072 744872000235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872000236 active site 744872000237 phosphorylation site [posttranslational modification] 744872000238 intermolecular recognition site; other site 744872000239 dimerization interface [polypeptide binding]; other site 744872000240 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 744872000241 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 744872000242 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 744872000243 pullulanase, type I; Region: pulA_typeI; TIGR02104 744872000244 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 744872000245 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 744872000246 Ca binding site [ion binding]; other site 744872000247 active site 744872000248 catalytic site [active] 744872000249 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 744872000250 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 744872000251 Ca binding site [ion binding]; other site 744872000252 active site 744872000253 catalytic site [active] 744872000254 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872000255 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872000256 dimer interface [polypeptide binding]; other site 744872000257 conserved gate region; other site 744872000258 putative PBP binding loops; other site 744872000259 ABC-ATPase subunit interface; other site 744872000260 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872000261 dimer interface [polypeptide binding]; other site 744872000262 conserved gate region; other site 744872000263 putative PBP binding loops; other site 744872000264 ABC-ATPase subunit interface; other site 744872000265 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 744872000266 maltodextrin glucosidase; Provisional; Region: PRK10785 744872000267 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 744872000268 homodimer interface [polypeptide binding]; other site 744872000269 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 744872000270 active site 744872000271 homodimer interface [polypeptide binding]; other site 744872000272 catalytic site [active] 744872000273 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 744872000274 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 744872000275 active site 744872000276 NTP binding site [chemical binding]; other site 744872000277 metal binding triad [ion binding]; metal-binding site 744872000278 antibiotic binding site [chemical binding]; other site 744872000279 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 744872000280 nudix motif; other site 744872000281 AAA domain; Region: AAA_14; pfam13173 744872000282 AAA domain; Region: AAA_22; pfam13401 744872000283 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 744872000284 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 744872000285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 744872000286 Transposase; Region: HTH_Tnp_1; cl17663 744872000287 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 744872000288 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 744872000289 putative active site [active] 744872000290 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 744872000291 DNA methylase; Region: N6_N4_Mtase; pfam01555 744872000292 DNA methylase; Region: N6_N4_Mtase; pfam01555 744872000293 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 744872000294 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 744872000295 putative active site [active] 744872000296 catalytic site [active] 744872000297 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 744872000298 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 744872000299 ATP binding site [chemical binding]; other site 744872000300 putative Mg++ binding site [ion binding]; other site 744872000301 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 744872000302 nucleotide binding region [chemical binding]; other site 744872000303 ATP-binding site [chemical binding]; other site 744872000304 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 744872000305 Walker A motif; other site 744872000306 ATP binding site [chemical binding]; other site 744872000307 Walker B motif; other site 744872000308 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 744872000309 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 744872000310 oligomeric interface; other site 744872000311 putative active site [active] 744872000312 homodimer interface [polypeptide binding]; other site 744872000313 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 744872000314 CLUSTERIN Beta chain; Region: CLb; smart00030 744872000315 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 744872000316 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 744872000317 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 744872000318 metal ion-dependent adhesion site (MIDAS); other site 744872000319 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 744872000320 active site 744872000321 ATP binding site [chemical binding]; other site 744872000322 substrate binding site [chemical binding]; other site 744872000323 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 744872000324 generic binding surface I; other site 744872000325 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 744872000326 Phosphatidylinositol N-acetylglucosaminyltransferase; Region: GPI2; pfam06432 744872000327 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872000328 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 744872000329 metal binding site [ion binding]; metal-binding site 744872000330 active site 744872000331 I-site; other site 744872000332 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 744872000333 Uncharacterized conserved protein [Function unknown]; Region: COG1434 744872000334 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 744872000335 putative active site [active] 744872000336 serine hydroxymethyltransferase; Provisional; Region: PRK13580 744872000337 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 744872000338 dimer interface [polypeptide binding]; other site 744872000339 active site 744872000340 glycine-pyridoxal phosphate binding site [chemical binding]; other site 744872000341 folate binding site [chemical binding]; other site 744872000342 hypothetical protein; Provisional; Region: PRK02487 744872000343 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 744872000344 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 744872000345 Histidine kinase; Region: HisKA_3; pfam07730 744872000346 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872000347 ATP binding site [chemical binding]; other site 744872000348 Mg2+ binding site [ion binding]; other site 744872000349 G-X-G motif; other site 744872000350 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 744872000351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872000352 active site 744872000353 phosphorylation site [posttranslational modification] 744872000354 intermolecular recognition site; other site 744872000355 dimerization interface [polypeptide binding]; other site 744872000356 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 744872000357 DNA binding residues [nucleotide binding] 744872000358 dimerization interface [polypeptide binding]; other site 744872000359 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872000360 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 744872000361 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 744872000362 ligand binding site [chemical binding]; other site 744872000363 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 744872000364 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 744872000365 putative ligand binding site [chemical binding]; other site 744872000366 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 744872000367 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 744872000368 Walker A/P-loop; other site 744872000369 ATP binding site [chemical binding]; other site 744872000370 Q-loop/lid; other site 744872000371 ABC transporter signature motif; other site 744872000372 Walker B; other site 744872000373 D-loop; other site 744872000374 H-loop/switch region; other site 744872000375 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872000376 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872000377 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872000378 TM-ABC transporter signature motif; other site 744872000379 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 744872000380 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 744872000381 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 744872000382 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 744872000383 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 744872000384 ATP binding site [chemical binding]; other site 744872000385 substrate binding site [chemical binding]; other site 744872000386 Tocopherol cyclase; Region: Tocopherol_cycl; cl14571 744872000387 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 744872000388 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 744872000389 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 744872000390 FAD binding pocket [chemical binding]; other site 744872000391 FAD binding motif [chemical binding]; other site 744872000392 phosphate binding motif [ion binding]; other site 744872000393 beta-alpha-beta structure motif; other site 744872000394 NAD binding pocket [chemical binding]; other site 744872000395 Iron coordination center [ion binding]; other site 744872000396 putative oxidoreductase; Provisional; Region: PRK12831 744872000397 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 744872000398 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 744872000399 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 744872000400 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 744872000401 ligand binding site [chemical binding]; other site 744872000402 flexible hinge region; other site 744872000403 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 744872000404 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 744872000405 active site 744872000406 metal binding site [ion binding]; metal-binding site 744872000407 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 744872000408 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 744872000409 TPR motif; other site 744872000410 binding surface 744872000411 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 744872000412 TPR motif; other site 744872000413 binding surface 744872000414 TPR repeat; Region: TPR_11; pfam13414 744872000415 potential frameshift: common BLAST hit: gi|333999351|ref|YP_004531963.1| putative heptaprenyl diphosphate synthase component I 744872000416 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 744872000417 NGN-insert domain found between N-terminal domain (D1) and C-terminal KOW domain (DIII) repeats of some N-Utilization Substance G (NusG) N-terminal (NGN); Region: NGN-insert_like; cd09910 744872000418 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 744872000419 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 744872000420 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 744872000421 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 744872000422 putative NAD(P) binding site [chemical binding]; other site 744872000423 active site 744872000424 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 744872000425 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 744872000426 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 744872000427 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 744872000428 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 744872000429 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 744872000430 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872000431 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872000432 dimer interface [polypeptide binding]; other site 744872000433 conserved gate region; other site 744872000434 putative PBP binding loops; other site 744872000435 ABC-ATPase subunit interface; other site 744872000436 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 744872000437 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872000438 dimer interface [polypeptide binding]; other site 744872000439 conserved gate region; other site 744872000440 putative PBP binding loops; other site 744872000441 ABC-ATPase subunit interface; other site 744872000442 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872000443 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872000444 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 744872000445 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872000446 active site 744872000447 phosphorylation site [posttranslational modification] 744872000448 intermolecular recognition site; other site 744872000449 dimerization interface [polypeptide binding]; other site 744872000450 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 744872000451 DNA binding residues [nucleotide binding] 744872000452 dimerization interface [polypeptide binding]; other site 744872000453 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 744872000454 Protein of unknown function (DUF904); Region: DUF904; cl11531 744872000455 Histidine kinase; Region: HisKA_3; pfam07730 744872000456 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872000457 ATP binding site [chemical binding]; other site 744872000458 Mg2+ binding site [ion binding]; other site 744872000459 G-X-G motif; other site 744872000460 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 744872000461 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 744872000462 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 744872000463 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872000464 Walker A/P-loop; other site 744872000465 ATP binding site [chemical binding]; other site 744872000466 Q-loop/lid; other site 744872000467 ABC transporter signature motif; other site 744872000468 Walker B; other site 744872000469 D-loop; other site 744872000470 H-loop/switch region; other site 744872000471 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 744872000472 diiron binding motif [ion binding]; other site 744872000473 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 744872000474 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 744872000475 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK09616 744872000476 tRNA synthetase B5 domain; Region: B5; pfam03484 744872000477 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 744872000478 dimer interface [polypeptide binding]; other site 744872000479 motif 1; other site 744872000480 motif 3; other site 744872000481 motif 2; other site 744872000482 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 744872000483 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 744872000484 dimer interface [polypeptide binding]; other site 744872000485 motif 1; other site 744872000486 active site 744872000487 motif 2; other site 744872000488 motif 3; other site 744872000489 Uncharacterized conserved protein [Function unknown]; Region: COG0432 744872000490 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 744872000491 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 744872000492 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 744872000493 catalytic loop [active] 744872000494 iron binding site [ion binding]; other site 744872000495 GAF domain; Region: GAF_3; pfam13492 744872000496 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 744872000497 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872000498 metal binding site [ion binding]; metal-binding site 744872000499 active site 744872000500 I-site; other site 744872000501 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 744872000502 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 744872000503 FMN binding site [chemical binding]; other site 744872000504 active site 744872000505 catalytic residues [active] 744872000506 substrate binding site [chemical binding]; other site 744872000507 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 744872000508 active site 744872000509 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 744872000510 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 744872000511 catalytic motif [active] 744872000512 Zn binding site [ion binding]; other site 744872000513 RibD C-terminal domain; Region: RibD_C; cl17279 744872000514 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 744872000515 Lumazine binding domain; Region: Lum_binding; pfam00677 744872000516 Lumazine binding domain; Region: Lum_binding; pfam00677 744872000517 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 744872000518 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 744872000519 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 744872000520 dimerization interface [polypeptide binding]; other site 744872000521 active site 744872000522 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 744872000523 homopentamer interface [polypeptide binding]; other site 744872000524 active site 744872000525 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 744872000526 dimer interface [polypeptide binding]; other site 744872000527 substrate binding site [chemical binding]; other site 744872000528 ATP binding site [chemical binding]; other site 744872000529 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 744872000530 substrate binding site [chemical binding]; other site 744872000531 multimerization interface [polypeptide binding]; other site 744872000532 ATP binding site [chemical binding]; other site 744872000533 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 744872000534 thiamine phosphate binding site [chemical binding]; other site 744872000535 active site 744872000536 pyrophosphate binding site [ion binding]; other site 744872000537 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 744872000538 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 744872000539 active site 744872000540 motif II; other site 744872000541 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 744872000542 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 744872000543 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 744872000544 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK14607 744872000545 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 744872000546 glutamine binding [chemical binding]; other site 744872000547 catalytic triad [active] 744872000548 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 744872000549 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 744872000550 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 744872000551 active site 744872000552 ribulose/triose binding site [chemical binding]; other site 744872000553 phosphate binding site [ion binding]; other site 744872000554 substrate (anthranilate) binding pocket [chemical binding]; other site 744872000555 product (indole) binding pocket [chemical binding]; other site 744872000556 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 744872000557 phosphate binding site [ion binding]; other site 744872000558 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 744872000559 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 744872000560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872000561 catalytic residue [active] 744872000562 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 744872000563 substrate binding site [chemical binding]; other site 744872000564 active site 744872000565 catalytic residues [active] 744872000566 heterodimer interface [polypeptide binding]; other site 744872000567 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 744872000568 hypothetical protein; Provisional; Region: PRK00955 744872000569 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 744872000570 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 744872000571 SlyX; Region: SlyX; pfam04102 744872000572 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 744872000573 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 744872000574 active site 744872000575 ADP/pyrophosphate binding site [chemical binding]; other site 744872000576 dimerization interface [polypeptide binding]; other site 744872000577 allosteric effector site; other site 744872000578 fructose-1,6-bisphosphate binding site; other site 744872000579 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 744872000580 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872000581 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 744872000582 dimer interface [polypeptide binding]; other site 744872000583 phosphorylation site [posttranslational modification] 744872000584 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872000585 ATP binding site [chemical binding]; other site 744872000586 Mg2+ binding site [ion binding]; other site 744872000587 G-X-G motif; other site 744872000588 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 744872000589 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 744872000590 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 744872000591 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 744872000592 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 744872000593 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 744872000594 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 744872000595 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 744872000596 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 744872000597 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 744872000598 Outer membrane efflux protein; Region: OEP; pfam02321 744872000599 Outer membrane efflux protein; Region: OEP; pfam02321 744872000600 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 744872000601 HlyD family secretion protein; Region: HlyD_3; pfam13437 744872000602 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 744872000603 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 744872000604 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 744872000605 active site 744872000606 dimerization interface [polypeptide binding]; other site 744872000607 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 744872000608 ApbE family; Region: ApbE; pfam02424 744872000609 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 744872000610 active site 744872000611 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 744872000612 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 744872000613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 744872000614 phosphorylation site [posttranslational modification] 744872000615 PAS domain S-box; Region: sensory_box; TIGR00229 744872000616 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 744872000617 putative active site [active] 744872000618 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 744872000619 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 744872000620 putative active site [active] 744872000621 heme pocket [chemical binding]; other site 744872000622 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 744872000623 dimer interface [polypeptide binding]; other site 744872000624 phosphorylation site [posttranslational modification] 744872000625 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872000626 ATP binding site [chemical binding]; other site 744872000627 Mg2+ binding site [ion binding]; other site 744872000628 G-X-G motif; other site 744872000629 Response regulator receiver domain; Region: Response_reg; pfam00072 744872000630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872000631 active site 744872000632 phosphorylation site [posttranslational modification] 744872000633 intermolecular recognition site; other site 744872000634 dimerization interface [polypeptide binding]; other site 744872000635 glycerol kinase; Provisional; Region: glpK; PRK00047 744872000636 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 744872000637 N- and C-terminal domain interface [polypeptide binding]; other site 744872000638 active site 744872000639 MgATP binding site [chemical binding]; other site 744872000640 catalytic site [active] 744872000641 metal binding site [ion binding]; metal-binding site 744872000642 glycerol binding site [chemical binding]; other site 744872000643 homotetramer interface [polypeptide binding]; other site 744872000644 homodimer interface [polypeptide binding]; other site 744872000645 FBP binding site [chemical binding]; other site 744872000646 protein IIAGlc interface [polypeptide binding]; other site 744872000647 recombination protein RecR; Reviewed; Region: recR; PRK00076 744872000648 RecR protein; Region: RecR; pfam02132 744872000649 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 744872000650 putative active site [active] 744872000651 putative metal-binding site [ion binding]; other site 744872000652 tetramer interface [polypeptide binding]; other site 744872000653 hypothetical protein; Validated; Region: PRK00153 744872000654 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 744872000655 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 744872000656 Walker A motif; other site 744872000657 ATP binding site [chemical binding]; other site 744872000658 Walker B motif; other site 744872000659 arginine finger; other site 744872000660 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 744872000661 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 744872000662 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 744872000663 motif II; other site 744872000664 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 744872000665 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 744872000666 active site 744872000667 metal binding site [ion binding]; metal-binding site 744872000668 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 744872000669 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 744872000670 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 744872000671 active site 744872000672 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 744872000673 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872000674 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872000675 dimer interface [polypeptide binding]; other site 744872000676 conserved gate region; other site 744872000677 putative PBP binding loops; other site 744872000678 ABC-ATPase subunit interface; other site 744872000679 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 744872000680 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872000681 dimer interface [polypeptide binding]; other site 744872000682 ABC-ATPase subunit interface; other site 744872000683 putative PBP binding loops; other site 744872000684 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872000685 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 744872000686 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872000687 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 744872000688 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872000689 active site 744872000690 phosphorylation site [posttranslational modification] 744872000691 intermolecular recognition site; other site 744872000692 dimerization interface [polypeptide binding]; other site 744872000693 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 744872000694 DNA binding residues [nucleotide binding] 744872000695 dimerization interface [polypeptide binding]; other site 744872000696 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 744872000697 Histidine kinase; Region: HisKA_3; pfam07730 744872000698 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872000699 ATP binding site [chemical binding]; other site 744872000700 Mg2+ binding site [ion binding]; other site 744872000701 G-X-G motif; other site 744872000702 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 744872000703 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 744872000704 putative active site [active] 744872000705 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 744872000706 dimer interface [polypeptide binding]; other site 744872000707 [2Fe-2S] cluster binding site [ion binding]; other site 744872000708 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 744872000709 4Fe-4S binding domain; Region: Fer4; pfam00037 744872000710 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 744872000711 Putative Fe-S cluster; Region: FeS; cl17515 744872000712 PAS fold; Region: PAS; pfam00989 744872000713 PAS domain; Region: PAS; smart00091 744872000714 putative active site [active] 744872000715 heme pocket [chemical binding]; other site 744872000716 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 744872000717 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 744872000718 putative dimer interface [polypeptide binding]; other site 744872000719 [2Fe-2S] cluster binding site [ion binding]; other site 744872000720 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 744872000721 4Fe-4S binding domain; Region: Fer4; pfam00037 744872000722 4Fe-4S binding domain; Region: Fer4; pfam00037 744872000723 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 744872000724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 744872000725 SEC-C motif; Region: SEC-C; pfam02810 744872000726 SEC-C motif; Region: SEC-C; pfam02810 744872000727 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 744872000728 EamA-like transporter family; Region: EamA; pfam00892 744872000729 EamA-like transporter family; Region: EamA; pfam00892 744872000730 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 744872000731 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 744872000732 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 744872000733 hinge; other site 744872000734 active site 744872000735 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 744872000736 HSP70 interaction site [polypeptide binding]; other site 744872000737 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 744872000738 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 744872000739 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 744872000740 dimerization interface [polypeptide binding]; other site 744872000741 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 744872000742 DNA binding site [nucleotide binding] 744872000743 phage shock protein A; Region: phageshock_pspA; TIGR02977 744872000744 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 744872000745 anti sigma factor interaction site; other site 744872000746 regulatory phosphorylation site [posttranslational modification]; other site 744872000747 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 744872000748 classical (c) SDRs; Region: SDR_c; cd05233 744872000749 NAD(P) binding site [chemical binding]; other site 744872000750 active site 744872000751 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 744872000752 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 744872000753 Response regulator receiver domain; Region: Response_reg; pfam00072 744872000754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872000755 active site 744872000756 phosphorylation site [posttranslational modification] 744872000757 intermolecular recognition site; other site 744872000758 dimerization interface [polypeptide binding]; other site 744872000759 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 744872000760 Walker A motif; other site 744872000761 ATP binding site [chemical binding]; other site 744872000762 Walker B motif; other site 744872000763 arginine finger; other site 744872000764 Glycosyl transferase WecB/TagA/CpsF family; Region: Glyco_tran_WecB; pfam03808 744872000765 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 744872000766 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 744872000767 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 744872000768 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 744872000769 protein binding site [polypeptide binding]; other site 744872000770 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 744872000771 Catalytic dyad [active] 744872000772 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 744872000773 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 744872000774 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 744872000775 P-loop; other site 744872000776 Protein of unknown function (DUF342); Region: DUF342; pfam03961 744872000777 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 744872000778 threonine synthase; Validated; Region: PRK09225 744872000779 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 744872000780 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 744872000781 catalytic residue [active] 744872000782 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 744872000783 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 744872000784 putative dimer interface [polypeptide binding]; other site 744872000785 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 744872000786 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 744872000787 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 744872000788 TPP-binding site [chemical binding]; other site 744872000789 dimer interface [polypeptide binding]; other site 744872000790 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 744872000791 PYR/PP interface [polypeptide binding]; other site 744872000792 dimer interface [polypeptide binding]; other site 744872000793 TPP binding site [chemical binding]; other site 744872000794 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 744872000795 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 744872000796 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 744872000797 putative acyl-acceptor binding pocket; other site 744872000798 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 744872000799 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 744872000800 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 744872000801 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 744872000802 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 744872000803 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 744872000804 ligand binding site [chemical binding]; other site 744872000805 spermidine synthase; Provisional; Region: PRK00811 744872000806 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 744872000807 S-adenosylmethionine binding site [chemical binding]; other site 744872000808 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 744872000809 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 744872000810 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 744872000811 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 744872000812 Major Facilitator Superfamily; Region: MFS_1; pfam07690 744872000813 putative substrate translocation pore; other site 744872000814 HD domain; Region: HD_3; pfam13023 744872000815 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 744872000816 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 744872000817 motif II; other site 744872000818 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 744872000819 PIN domain; Region: PIN_3; cl17397 744872000820 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 744872000821 putative active site [active] 744872000822 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 744872000823 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 744872000824 dimer interface [polypeptide binding]; other site 744872000825 anticodon binding site; other site 744872000826 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 744872000827 homodimer interface [polypeptide binding]; other site 744872000828 motif 1; other site 744872000829 active site 744872000830 motif 2; other site 744872000831 GAD domain; Region: GAD; pfam02938 744872000832 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 744872000833 active site 744872000834 motif 3; other site 744872000835 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 744872000836 MgtC family; Region: MgtC; pfam02308 744872000837 Flagellin N-methylase; Region: FliB; cl00497 744872000838 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 744872000839 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 744872000840 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 744872000841 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 744872000842 motif II; other site 744872000843 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 744872000844 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 744872000845 nucleotide binding site [chemical binding]; other site 744872000846 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 744872000847 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 744872000848 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 744872000849 active site 744872000850 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 744872000851 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 744872000852 ligand binding site [chemical binding]; other site 744872000853 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 744872000854 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 744872000855 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 744872000856 oligomeric interface; other site 744872000857 putative active site [active] 744872000858 homodimer interface [polypeptide binding]; other site 744872000859 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 744872000860 Transposase domain (DUF772); Region: DUF772; pfam05598 744872000861 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872000862 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 744872000863 AAA domain; Region: AAA_14; pfam13173 744872000864 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 744872000865 hypothetical protein; Provisional; Region: PRK10977 744872000866 Pyruvate formate lyase; Region: PFL; pfam02901 744872000867 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 744872000868 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 744872000869 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 744872000870 4Fe-4S binding domain; Region: Fer4; cl02805 744872000871 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 744872000872 FeS/SAM binding site; other site 744872000873 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 744872000874 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 744872000875 N-terminal domain of chitobiose phosphorylase (ChBP) and similar proteins; Region: GH94N_ChBP_like; cd11755 744872000876 catalytic domain interface [polypeptide binding]; other site 744872000877 putative homodimer interface [polypeptide binding]; other site 744872000878 Protein of unknown function, DUF608; Region: DUF608; pfam04685 744872000879 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 744872000880 Ion transport protein; Region: Ion_trans; pfam00520 744872000881 Ion channel; Region: Ion_trans_2; pfam07885 744872000882 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 744872000883 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 744872000884 ligand binding site [chemical binding]; other site 744872000885 flexible hinge region; other site 744872000886 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 744872000887 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 744872000888 acyl-activating enzyme (AAE) consensus motif; other site 744872000889 putative AMP binding site [chemical binding]; other site 744872000890 putative active site [active] 744872000891 putative CoA binding site [chemical binding]; other site 744872000892 Response regulator receiver domain; Region: Response_reg; pfam00072 744872000893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872000894 active site 744872000895 phosphorylation site [posttranslational modification] 744872000896 intermolecular recognition site; other site 744872000897 dimerization interface [polypeptide binding]; other site 744872000898 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 744872000899 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 744872000900 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872000901 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 744872000902 dimer interface [polypeptide binding]; other site 744872000903 phosphorylation site [posttranslational modification] 744872000904 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872000905 ATP binding site [chemical binding]; other site 744872000906 Mg2+ binding site [ion binding]; other site 744872000907 G-X-G motif; other site 744872000908 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 744872000909 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872000910 active site 744872000911 phosphorylation site [posttranslational modification] 744872000912 intermolecular recognition site; other site 744872000913 dimerization interface [polypeptide binding]; other site 744872000914 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 744872000915 heat shock protein 90; Provisional; Region: PRK05218 744872000916 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872000917 ATP binding site [chemical binding]; other site 744872000918 Mg2+ binding site [ion binding]; other site 744872000919 G-X-G motif; other site 744872000920 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 744872000921 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 744872000922 Melibiase; Region: Melibiase; pfam02065 744872000923 Transcriptional regulators [Transcription]; Region: MarR; COG1846 744872000924 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 744872000925 putative DNA binding site [nucleotide binding]; other site 744872000926 dimerization interface [polypeptide binding]; other site 744872000927 putative Zn2+ binding site [ion binding]; other site 744872000928 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 744872000929 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 744872000930 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872000931 Walker A/P-loop; other site 744872000932 ATP binding site [chemical binding]; other site 744872000933 Q-loop/lid; other site 744872000934 ABC transporter signature motif; other site 744872000935 Walker B; other site 744872000936 D-loop; other site 744872000937 H-loop/switch region; other site 744872000938 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 744872000939 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 744872000940 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 744872000941 Walker A/P-loop; other site 744872000942 ATP binding site [chemical binding]; other site 744872000943 Q-loop/lid; other site 744872000944 ABC transporter signature motif; other site 744872000945 Walker B; other site 744872000946 D-loop; other site 744872000947 H-loop/switch region; other site 744872000948 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 744872000949 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 744872000950 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 744872000951 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 744872000952 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 744872000953 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 744872000954 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 744872000955 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 744872000956 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 744872000957 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 744872000958 putative NAD(P) binding site [chemical binding]; other site 744872000959 putative active site [active] 744872000960 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 744872000961 dimerization interface [polypeptide binding]; other site 744872000962 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 744872000963 ligand binding site [chemical binding]; other site 744872000964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 744872000965 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872000966 ATP binding site [chemical binding]; other site 744872000967 Mg2+ binding site [ion binding]; other site 744872000968 G-X-G motif; other site 744872000969 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 744872000970 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872000971 active site 744872000972 phosphorylation site [posttranslational modification] 744872000973 intermolecular recognition site; other site 744872000974 dimerization interface [polypeptide binding]; other site 744872000975 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 744872000976 DNA binding residues [nucleotide binding] 744872000977 dimerization interface [polypeptide binding]; other site 744872000978 Glycosyl hydrolase family 52; Region: Glyco_hydro_52; pfam03512 744872000979 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872000980 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872000981 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 744872000982 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872000983 dimer interface [polypeptide binding]; other site 744872000984 conserved gate region; other site 744872000985 putative PBP binding loops; other site 744872000986 ABC-ATPase subunit interface; other site 744872000987 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872000988 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872000989 dimer interface [polypeptide binding]; other site 744872000990 conserved gate region; other site 744872000991 putative PBP binding loops; other site 744872000992 ABC-ATPase subunit interface; other site 744872000993 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 744872000994 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 744872000995 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 744872000996 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 744872000997 DctM-like transporters; Region: DctM; pfam06808 744872000998 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 744872000999 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 744872001000 cyclase homology domain; Region: CHD; cd07302 744872001001 nucleotidyl binding site; other site 744872001002 metal binding site [ion binding]; metal-binding site 744872001003 dimer interface [polypeptide binding]; other site 744872001004 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 744872001005 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 744872001006 trimerization site [polypeptide binding]; other site 744872001007 active site 744872001008 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 744872001009 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 744872001010 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 744872001011 catalytic residue [active] 744872001012 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 744872001013 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 744872001014 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 744872001015 FeS assembly protein SufB; Region: sufB; TIGR01980 744872001016 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 744872001017 FeS assembly ATPase SufC; Region: sufC; TIGR01978 744872001018 Walker A/P-loop; other site 744872001019 ATP binding site [chemical binding]; other site 744872001020 Q-loop/lid; other site 744872001021 ABC transporter signature motif; other site 744872001022 Walker B; other site 744872001023 D-loop; other site 744872001024 H-loop/switch region; other site 744872001025 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 744872001026 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 744872001027 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 744872001028 RNA methyltransferase, RsmE family; Region: TIGR00046 744872001029 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 744872001030 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 744872001031 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 744872001032 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 744872001033 putative homodimer interface [polypeptide binding]; other site 744872001034 putative active site pocket [active] 744872001035 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 744872001036 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 744872001037 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 744872001038 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 744872001039 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 744872001040 DNA binding residues [nucleotide binding] 744872001041 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 744872001042 hydroxyglutarate oxidase; Provisional; Region: PRK11728 744872001043 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 744872001044 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 744872001045 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 744872001046 catalytic loop [active] 744872001047 iron binding site [ion binding]; other site 744872001048 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 744872001049 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 744872001050 HflX GTPase family; Region: HflX; cd01878 744872001051 G1 box; other site 744872001052 GTP/Mg2+ binding site [chemical binding]; other site 744872001053 Switch I region; other site 744872001054 G2 box; other site 744872001055 G3 box; other site 744872001056 Switch II region; other site 744872001057 G4 box; other site 744872001058 G5 box; other site 744872001059 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 744872001060 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 744872001061 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 744872001062 Peptidase family M23; Region: Peptidase_M23; pfam01551 744872001063 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 744872001064 putative active site [active] 744872001065 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 744872001066 glycogen binding site [chemical binding]; other site 744872001067 Bifunctional nuclease; Region: DNase-RNase; pfam02577 744872001068 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 744872001069 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 744872001070 substrate binding pocket [chemical binding]; other site 744872001071 chain length determination region; other site 744872001072 substrate-Mg2+ binding site; other site 744872001073 catalytic residues [active] 744872001074 aspartate-rich region 1; other site 744872001075 active site lid residues [active] 744872001076 aspartate-rich region 2; other site 744872001077 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 744872001078 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 744872001079 S-adenosylmethionine binding site [chemical binding]; other site 744872001080 Fic/DOC family; Region: Fic; cl00960 744872001081 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 744872001082 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 744872001083 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 744872001084 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 744872001085 putative DNA binding site [nucleotide binding]; other site 744872001086 putative Zn2+ binding site [ion binding]; other site 744872001087 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 744872001088 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 744872001089 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872001090 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872001091 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872001092 dimer interface [polypeptide binding]; other site 744872001093 conserved gate region; other site 744872001094 putative PBP binding loops; other site 744872001095 ABC-ATPase subunit interface; other site 744872001096 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872001097 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872001098 dimer interface [polypeptide binding]; other site 744872001099 conserved gate region; other site 744872001100 putative PBP binding loops; other site 744872001101 ABC-ATPase subunit interface; other site 744872001102 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 744872001103 N-terminal domain of cellobiose phosphorylase (CBP) and similar proteins; Region: GH94N_CBP_like; cd11754 744872001104 catalytic domain interface [polypeptide binding]; other site 744872001105 homodimer interface [polypeptide binding]; other site 744872001106 putative active site [active] 744872001107 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 744872001108 putative catalytic site [active] 744872001109 putative metal binding site [ion binding]; other site 744872001110 putative phosphate binding site [ion binding]; other site 744872001111 FeoA domain; Region: FeoA; pfam04023 744872001112 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 744872001113 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 744872001114 G1 box; other site 744872001115 GTP/Mg2+ binding site [chemical binding]; other site 744872001116 Switch I region; other site 744872001117 G2 box; other site 744872001118 G3 box; other site 744872001119 Switch II region; other site 744872001120 G4 box; other site 744872001121 G5 box; other site 744872001122 Nucleoside recognition; Region: Gate; pfam07670 744872001123 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 744872001124 Nucleoside recognition; Region: Gate; pfam07670 744872001125 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 744872001126 classical (c) SDRs; Region: SDR_c; cd05233 744872001127 NAD(P) binding site [chemical binding]; other site 744872001128 active site 744872001129 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 744872001130 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 744872001131 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 744872001132 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 744872001133 N-acetyl-D-glucosamine binding site [chemical binding]; other site 744872001134 catalytic residue [active] 744872001135 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 744872001136 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 744872001137 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 744872001138 binding surface 744872001139 TPR motif; other site 744872001140 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 744872001141 binding surface 744872001142 TPR motif; other site 744872001143 Restriction endonuclease; Region: Mrr_cat; pfam04471 744872001144 RmuC family; Region: RmuC; pfam02646 744872001145 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 744872001146 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 744872001147 dimer interface [polypeptide binding]; other site 744872001148 active site residues [active] 744872001149 hypothetical protein; Provisional; Region: PRK13665 744872001150 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 744872001151 Walker A motif; other site 744872001152 ATP binding site [chemical binding]; other site 744872001153 Walker B motif; other site 744872001154 arginine finger; other site 744872001155 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 744872001156 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 744872001157 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 744872001158 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 744872001159 Major Facilitator Superfamily; Region: MFS_1; pfam07690 744872001160 putative substrate translocation pore; other site 744872001161 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 744872001162 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 744872001163 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 744872001164 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 744872001165 putative homodimer interface [polypeptide binding]; other site 744872001166 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 744872001167 heterodimer interface [polypeptide binding]; other site 744872001168 homodimer interface [polypeptide binding]; other site 744872001169 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 744872001170 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 744872001171 23S rRNA interface [nucleotide binding]; other site 744872001172 L7/L12 interface [polypeptide binding]; other site 744872001173 putative thiostrepton binding site; other site 744872001174 L25 interface [polypeptide binding]; other site 744872001175 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 744872001176 mRNA/rRNA interface [nucleotide binding]; other site 744872001177 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 744872001178 23S rRNA interface [nucleotide binding]; other site 744872001179 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 744872001180 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 744872001181 core dimer interface [polypeptide binding]; other site 744872001182 peripheral dimer interface [polypeptide binding]; other site 744872001183 L10 interface [polypeptide binding]; other site 744872001184 L11 interface [polypeptide binding]; other site 744872001185 putative EF-Tu interaction site [polypeptide binding]; other site 744872001186 putative EF-G interaction site [polypeptide binding]; other site 744872001187 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 744872001188 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 744872001189 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 744872001190 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 744872001191 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 744872001192 RPB1 interaction site [polypeptide binding]; other site 744872001193 RPB10 interaction site [polypeptide binding]; other site 744872001194 RPB11 interaction site [polypeptide binding]; other site 744872001195 RPB3 interaction site [polypeptide binding]; other site 744872001196 RPB12 interaction site [polypeptide binding]; other site 744872001197 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 744872001198 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 744872001199 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 744872001200 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 744872001201 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 744872001202 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 744872001203 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 744872001204 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 744872001205 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 744872001206 DNA binding site [nucleotide binding] 744872001207 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 744872001208 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 744872001209 S17 interaction site [polypeptide binding]; other site 744872001210 S8 interaction site; other site 744872001211 16S rRNA interaction site [nucleotide binding]; other site 744872001212 streptomycin interaction site [chemical binding]; other site 744872001213 23S rRNA interaction site [nucleotide binding]; other site 744872001214 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 744872001215 30S ribosomal protein S7; Validated; Region: PRK05302 744872001216 elongation factor Tu; Reviewed; Region: PRK00049 744872001217 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 744872001218 G1 box; other site 744872001219 GEF interaction site [polypeptide binding]; other site 744872001220 GTP/Mg2+ binding site [chemical binding]; other site 744872001221 Switch I region; other site 744872001222 G2 box; other site 744872001223 G3 box; other site 744872001224 Switch II region; other site 744872001225 G4 box; other site 744872001226 G5 box; other site 744872001227 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 744872001228 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 744872001229 Antibiotic Binding Site [chemical binding]; other site 744872001230 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 744872001231 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 744872001232 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 744872001233 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 744872001234 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 744872001235 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 744872001236 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 744872001237 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 744872001238 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 744872001239 putative translocon binding site; other site 744872001240 protein-rRNA interface [nucleotide binding]; other site 744872001241 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 744872001242 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 744872001243 G-X-X-G motif; other site 744872001244 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 744872001245 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 744872001246 23S rRNA interface [nucleotide binding]; other site 744872001247 5S rRNA interface [nucleotide binding]; other site 744872001248 putative antibiotic binding site [chemical binding]; other site 744872001249 L25 interface [polypeptide binding]; other site 744872001250 L27 interface [polypeptide binding]; other site 744872001251 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 744872001252 23S rRNA interface [nucleotide binding]; other site 744872001253 putative translocon interaction site; other site 744872001254 signal recognition particle (SRP54) interaction site; other site 744872001255 L23 interface [polypeptide binding]; other site 744872001256 trigger factor interaction site; other site 744872001257 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 744872001258 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 744872001259 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 744872001260 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 744872001261 RNA binding site [nucleotide binding]; other site 744872001262 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 744872001263 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 744872001264 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 744872001265 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 744872001266 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 744872001267 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 744872001268 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 744872001269 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 744872001270 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 744872001271 23S rRNA interface [nucleotide binding]; other site 744872001272 L21e interface [polypeptide binding]; other site 744872001273 5S rRNA interface [nucleotide binding]; other site 744872001274 L27 interface [polypeptide binding]; other site 744872001275 L5 interface [polypeptide binding]; other site 744872001276 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 744872001277 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 744872001278 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 744872001279 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 744872001280 23S rRNA binding site [nucleotide binding]; other site 744872001281 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 744872001282 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 744872001283 SecY translocase; Region: SecY; pfam00344 744872001284 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 744872001285 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 744872001286 30S ribosomal protein S13; Region: bact_S13; TIGR03631 744872001287 30S ribosomal protein S11; Validated; Region: PRK05309 744872001288 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 744872001289 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 744872001290 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 744872001291 RNA binding surface [nucleotide binding]; other site 744872001292 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 744872001293 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 744872001294 alphaNTD - beta interaction site [polypeptide binding]; other site 744872001295 alphaNTD homodimer interface [polypeptide binding]; other site 744872001296 alphaNTD - beta' interaction site [polypeptide binding]; other site 744872001297 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 744872001298 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 744872001299 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 744872001300 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 744872001301 dimerization interface [polypeptide binding]; other site 744872001302 ligand binding site [chemical binding]; other site 744872001303 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872001304 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 744872001305 TM-ABC transporter signature motif; other site 744872001306 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 744872001307 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 744872001308 TM-ABC transporter signature motif; other site 744872001309 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 744872001310 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 744872001311 Walker A/P-loop; other site 744872001312 ATP binding site [chemical binding]; other site 744872001313 Q-loop/lid; other site 744872001314 ABC transporter signature motif; other site 744872001315 Walker B; other site 744872001316 D-loop; other site 744872001317 H-loop/switch region; other site 744872001318 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 744872001319 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 744872001320 Walker A/P-loop; other site 744872001321 ATP binding site [chemical binding]; other site 744872001322 Q-loop/lid; other site 744872001323 ABC transporter signature motif; other site 744872001324 Walker B; other site 744872001325 D-loop; other site 744872001326 H-loop/switch region; other site 744872001327 FOG: CBS domain [General function prediction only]; Region: COG0517 744872001328 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 744872001329 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 744872001330 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 744872001331 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872001332 Zn2+ binding site [ion binding]; other site 744872001333 Mg2+ binding site [ion binding]; other site 744872001334 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 744872001335 synthetase active site [active] 744872001336 NTP binding site [chemical binding]; other site 744872001337 metal binding site [ion binding]; metal-binding site 744872001338 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 744872001339 ACT domain; Region: ACT_4; pfam13291 744872001340 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 744872001341 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 744872001342 S-adenosylmethionine binding site [chemical binding]; other site 744872001343 peptide chain release factor 1; Validated; Region: prfA; PRK00591 744872001344 This domain is found in peptide chain release factors; Region: PCRF; smart00937 744872001345 RF-1 domain; Region: RF-1; pfam00472 744872001346 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 744872001347 binding surface 744872001348 TPR repeat; Region: TPR_11; pfam13414 744872001349 TPR motif; other site 744872001350 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 744872001351 TPR motif; other site 744872001352 binding surface 744872001353 adenosine deaminase; Provisional; Region: PRK09358 744872001354 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 744872001355 active site 744872001356 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 744872001357 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 744872001358 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 744872001359 putative active site [active] 744872001360 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 744872001361 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 744872001362 ring oligomerisation interface [polypeptide binding]; other site 744872001363 ATP/Mg binding site [chemical binding]; other site 744872001364 stacking interactions; other site 744872001365 hinge regions; other site 744872001366 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 744872001367 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 744872001368 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 744872001369 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 744872001370 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 744872001371 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 744872001372 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 744872001373 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 744872001374 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 744872001375 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 744872001376 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 744872001377 RNA/DNA hybrid binding site [nucleotide binding]; other site 744872001378 active site 744872001379 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 744872001380 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 744872001381 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 744872001382 dimer interface [polypeptide binding]; other site 744872001383 ADP-ribose binding site [chemical binding]; other site 744872001384 active site 744872001385 nudix motif; other site 744872001386 metal binding site [ion binding]; metal-binding site 744872001387 PAS domain S-box; Region: sensory_box; TIGR00229 744872001388 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 744872001389 putative active site [active] 744872001390 heme pocket [chemical binding]; other site 744872001391 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 744872001392 Histidine kinase; Region: HisKA_2; pfam07568 744872001393 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 744872001394 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 744872001395 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 744872001396 active site 744872001397 Zn binding site [ion binding]; other site 744872001398 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 744872001399 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 744872001400 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 744872001401 4-alpha-glucanotransferase; Provisional; Region: PRK14508 744872001402 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 744872001403 Walker A motif; other site 744872001404 ATP binding site [chemical binding]; other site 744872001405 Walker B motif; other site 744872001406 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 744872001407 elongation factor G; Reviewed; Region: PRK12740 744872001408 G1 box; other site 744872001409 putative GEF interaction site [polypeptide binding]; other site 744872001410 GTP/Mg2+ binding site [chemical binding]; other site 744872001411 Switch I region; other site 744872001412 G2 box; other site 744872001413 G3 box; other site 744872001414 Switch II region; other site 744872001415 G4 box; other site 744872001416 G5 box; other site 744872001417 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 744872001418 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 744872001419 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_C; cd04097 744872001420 Sporulation related domain; Region: SPOR; pfam05036 744872001421 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 744872001422 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 744872001423 CoA-binding site [chemical binding]; other site 744872001424 ATP-binding [chemical binding]; other site 744872001425 5'-3' exonuclease; Region: 53EXOc; smart00475 744872001426 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 744872001427 active site 744872001428 metal binding site 1 [ion binding]; metal-binding site 744872001429 putative 5' ssDNA interaction site; other site 744872001430 metal binding site 3; metal-binding site 744872001431 metal binding site 2 [ion binding]; metal-binding site 744872001432 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 744872001433 putative DNA binding site [nucleotide binding]; other site 744872001434 putative metal binding site [ion binding]; other site 744872001435 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 744872001436 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 744872001437 active site 744872001438 catalytic site [active] 744872001439 substrate binding site [chemical binding]; other site 744872001440 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 744872001441 active site 744872001442 DNA binding site [nucleotide binding] 744872001443 catalytic site [active] 744872001444 FlgN protein; Region: FlgN; pfam05130 744872001445 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 744872001446 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 744872001447 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 744872001448 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 744872001449 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 744872001450 dimer interface [polypeptide binding]; other site 744872001451 active site 744872001452 Mechanosensitive ion channel; Region: MS_channel; pfam00924 744872001453 FtsH Extracellular; Region: FtsH_ext; pfam06480 744872001454 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 744872001455 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 744872001456 Walker A motif; other site 744872001457 ATP binding site [chemical binding]; other site 744872001458 Walker B motif; other site 744872001459 arginine finger; other site 744872001460 Peptidase family M41; Region: Peptidase_M41; pfam01434 744872001461 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 744872001462 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 744872001463 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 744872001464 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 744872001465 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 744872001466 Helix-turn-helix domain; Region: HTH_25; pfam13413 744872001467 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 744872001468 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 744872001469 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 744872001470 FeS/SAM binding site; other site 744872001471 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 744872001472 Part of AAA domain; Region: AAA_19; pfam13245 744872001473 Family description; Region: UvrD_C_2; pfam13538 744872001474 glutamate-1-semialdehyde-2,1-aminomutase; Region: hemL; TIGR00713 744872001475 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 744872001476 23S rRNA interface [nucleotide binding]; other site 744872001477 L3 interface [polypeptide binding]; other site 744872001478 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 744872001479 recombination regulator RecX; Reviewed; Region: recX; PRK00117 744872001480 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 744872001481 DNA binding residues [nucleotide binding] 744872001482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872001483 Response regulator receiver domain; Region: Response_reg; pfam00072 744872001484 active site 744872001485 phosphorylation site [posttranslational modification] 744872001486 intermolecular recognition site; other site 744872001487 dimerization interface [polypeptide binding]; other site 744872001488 Response regulator receiver domain; Region: Response_reg; pfam00072 744872001489 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872001490 active site 744872001491 phosphorylation site [posttranslational modification] 744872001492 intermolecular recognition site; other site 744872001493 dimerization interface [polypeptide binding]; other site 744872001494 Acylphosphatase; Region: Acylphosphatase; pfam00708 744872001495 S-ribosylhomocysteinase; Provisional; Region: PRK02260 744872001496 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 744872001497 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 744872001498 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 744872001499 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 744872001500 anti sigma factor interaction site; other site 744872001501 regulatory phosphorylation site [posttranslational modification]; other site 744872001502 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 744872001503 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 744872001504 GAF domain; Region: GAF; cl17456 744872001505 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 744872001506 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872001507 metal binding site [ion binding]; metal-binding site 744872001508 active site 744872001509 I-site; other site 744872001510 hypothetical protein; Reviewed; Region: PRK12497 744872001511 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 744872001512 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 744872001513 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872001514 Zn2+ binding site [ion binding]; other site 744872001515 Mg2+ binding site [ion binding]; other site 744872001516 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 744872001517 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 744872001518 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 744872001519 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 744872001520 RimM N-terminal domain; Region: RimM; pfam01782 744872001521 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 744872001522 hypothetical protein; Provisional; Region: PRK00468 744872001523 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 744872001524 signal recognition particle protein; Provisional; Region: PRK10867 744872001525 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 744872001526 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 744872001527 P loop; other site 744872001528 GTP binding site [chemical binding]; other site 744872001529 Signal peptide binding domain; Region: SRP_SPB; pfam02978 744872001530 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 744872001531 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 744872001532 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 744872001533 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 744872001534 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 744872001535 active site 744872001536 Zn binding site [ion binding]; other site 744872001537 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 744872001538 active site 744872001539 multimer interface [polypeptide binding]; other site 744872001540 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 744872001541 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 744872001542 dimerization interface 3.5A [polypeptide binding]; other site 744872001543 active site 744872001544 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 744872001545 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 744872001546 active site 744872001547 HIGH motif; other site 744872001548 dimer interface [polypeptide binding]; other site 744872001549 KMSKS motif; other site 744872001550 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 744872001551 active site 744872001552 metal binding site [ion binding]; metal-binding site 744872001553 homotetramer interface [polypeptide binding]; other site 744872001554 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 744872001555 Protein of unknown function (DUF3798); Region: DUF3798; pfam12683 744872001556 Response regulator receiver domain; Region: Response_reg; pfam00072 744872001557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872001558 active site 744872001559 phosphorylation site [posttranslational modification] 744872001560 intermolecular recognition site; other site 744872001561 dimerization interface [polypeptide binding]; other site 744872001562 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 744872001563 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 744872001564 ATP binding site [chemical binding]; other site 744872001565 putative Mg++ binding site [ion binding]; other site 744872001566 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 744872001567 Mg++ binding site [ion binding]; other site 744872001568 AAA ATPase domain; Region: AAA_15; pfam13175 744872001569 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 744872001570 active site 744872001571 NTP binding site [chemical binding]; other site 744872001572 metal binding triad [ion binding]; metal-binding site 744872001573 antibiotic binding site [chemical binding]; other site 744872001574 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 744872001575 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 744872001576 NAD binding site [chemical binding]; other site 744872001577 substrate binding site [chemical binding]; other site 744872001578 active site 744872001579 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 744872001580 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 744872001581 inhibitor-cofactor binding pocket; inhibition site 744872001582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872001583 catalytic residue [active] 744872001584 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 744872001585 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 744872001586 putative trimer interface [polypeptide binding]; other site 744872001587 putative CoA binding site [chemical binding]; other site 744872001588 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 744872001589 NeuB family; Region: NeuB; pfam03102 744872001590 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 744872001591 NeuB binding interface [polypeptide binding]; other site 744872001592 putative substrate binding site [chemical binding]; other site 744872001593 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 744872001594 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 744872001595 active site 744872001596 homodimer interface [polypeptide binding]; other site 744872001597 FOG: CBS domain [General function prediction only]; Region: COG0517 744872001598 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 744872001599 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 744872001600 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 744872001601 Substrate binding site; other site 744872001602 metal-binding site 744872001603 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 744872001604 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 744872001605 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 744872001606 ligand binding site; other site 744872001607 tetramer interface; other site 744872001608 flagellin modification protein A; Provisional; Region: PRK09186 744872001609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 744872001610 NAD(P) binding site [chemical binding]; other site 744872001611 active site 744872001612 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 744872001613 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 744872001614 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 744872001615 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_III; cd01996 744872001616 Ligand Binding Site [chemical binding]; other site 744872001617 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 744872001618 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 744872001619 putative active site [active] 744872001620 oxyanion strand; other site 744872001621 catalytic triad [active] 744872001622 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 744872001623 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 744872001624 substrate binding site [chemical binding]; other site 744872001625 glutamase interaction surface [polypeptide binding]; other site 744872001626 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 744872001627 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 744872001628 NAD(P) binding site [chemical binding]; other site 744872001629 homodimer interface [polypeptide binding]; other site 744872001630 substrate binding site [chemical binding]; other site 744872001631 active site 744872001632 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 744872001633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 744872001634 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 744872001635 NAD(P) binding site [chemical binding]; other site 744872001636 active site 744872001637 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 744872001638 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 744872001639 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 744872001640 active site 744872001641 homodimer interface [polypeptide binding]; other site 744872001642 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 744872001643 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 744872001644 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 744872001645 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 744872001646 substrate binding site; other site 744872001647 tetramer interface; other site 744872001648 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 744872001649 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 744872001650 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 744872001651 NADP binding site [chemical binding]; other site 744872001652 active site 744872001653 putative substrate binding site [chemical binding]; other site 744872001654 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 744872001655 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 744872001656 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 744872001657 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 744872001658 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 744872001659 NAD binding site [chemical binding]; other site 744872001660 substrate binding site [chemical binding]; other site 744872001661 homodimer interface [polypeptide binding]; other site 744872001662 active site 744872001663 Protein of unknown function DUF262; Region: DUF262; pfam03235 744872001664 Uncharacterized conserved protein [Function unknown]; Region: COG1479 744872001665 Protein of unknown function DUF262; Region: DUF262; pfam03235 744872001666 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 744872001667 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 744872001668 Protein of unknown function (DUF499); Region: DUF499; pfam04465 744872001669 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 744872001670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872001671 Walker A/P-loop; other site 744872001672 ATP binding site [chemical binding]; other site 744872001673 Q-loop/lid; other site 744872001674 ABC transporter signature motif; other site 744872001675 Walker B; other site 744872001676 D-loop; other site 744872001677 H-loop/switch region; other site 744872001678 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872001679 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 744872001680 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872001681 TM-ABC transporter signature motif; other site 744872001682 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 744872001683 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872001684 TM-ABC transporter signature motif; other site 744872001685 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 744872001686 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 744872001687 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 744872001688 PhoU domain; Region: PhoU; pfam01895 744872001689 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 744872001690 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 744872001691 RNA binding site [nucleotide binding]; other site 744872001692 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 744872001693 enolase; Provisional; Region: eno; PRK00077 744872001694 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 744872001695 dimer interface [polypeptide binding]; other site 744872001696 metal binding site [ion binding]; metal-binding site 744872001697 substrate binding pocket [chemical binding]; other site 744872001698 Chromate transporter; Region: Chromate_transp; pfam02417 744872001699 Chromate transporter; Region: Chromate_transp; pfam02417 744872001700 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 744872001701 Histidine kinase; Region: HisKA_2; pfam07568 744872001702 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872001703 ATP binding site [chemical binding]; other site 744872001704 Mg2+ binding site [ion binding]; other site 744872001705 G-X-G motif; other site 744872001706 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 744872001707 UbiA prenyltransferase family; Region: UbiA; pfam01040 744872001708 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 744872001709 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 744872001710 substrate binding pocket [chemical binding]; other site 744872001711 membrane-bound complex binding site; other site 744872001712 hinge residues; other site 744872001713 PAS fold; Region: PAS_4; pfam08448 744872001714 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 744872001715 Histidine kinase; Region: HisKA_2; pfam07568 744872001716 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872001717 ATP binding site [chemical binding]; other site 744872001718 Mg2+ binding site [ion binding]; other site 744872001719 G-X-G motif; other site 744872001720 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 744872001721 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 744872001722 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 744872001723 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 744872001724 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 744872001725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 744872001726 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 744872001727 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 744872001728 active site 744872001729 nucleophile elbow; other site 744872001730 serine O-acetyltransferase; Region: cysE; TIGR01172 744872001731 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 744872001732 trimer interface [polypeptide binding]; other site 744872001733 active site 744872001734 substrate binding site [chemical binding]; other site 744872001735 CoA binding site [chemical binding]; other site 744872001736 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 744872001737 GTPase Era; Reviewed; Region: era; PRK00089 744872001738 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 744872001739 G1 box; other site 744872001740 GTP/Mg2+ binding site [chemical binding]; other site 744872001741 Switch I region; other site 744872001742 G2 box; other site 744872001743 Switch II region; other site 744872001744 G3 box; other site 744872001745 G4 box; other site 744872001746 G5 box; other site 744872001747 KH domain; Region: KH_2; pfam07650 744872001748 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 744872001749 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 744872001750 motif II; other site 744872001751 seryl-tRNA synthetase; Provisional; Region: PRK05431 744872001752 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 744872001753 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 744872001754 dimer interface [polypeptide binding]; other site 744872001755 active site 744872001756 motif 1; other site 744872001757 motif 2; other site 744872001758 motif 3; other site 744872001759 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 744872001760 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 744872001761 AAA domain; Region: AAA_32; pfam13654 744872001762 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 744872001763 oligomeric interface; other site 744872001764 putative active site [active] 744872001765 homodimer interface [polypeptide binding]; other site 744872001766 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 744872001767 AAA domain; Region: AAA_23; pfam13476 744872001768 Walker A/P-loop; other site 744872001769 ATP binding site [chemical binding]; other site 744872001770 Q-loop/lid; other site 744872001771 AAA domain; Region: AAA_21; pfam13304 744872001772 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 744872001773 ABC transporter signature motif; other site 744872001774 Walker B; other site 744872001775 D-loop; other site 744872001776 H-loop/switch region; other site 744872001777 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872001778 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 744872001779 oligomeric interface; other site 744872001780 putative active site [active] 744872001781 homodimer interface [polypeptide binding]; other site 744872001782 Staphylococcal nuclease homologues; Region: SNc; smart00318 744872001783 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 744872001784 Catalytic site; other site 744872001785 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 744872001786 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 744872001787 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 744872001788 ABC transporter; Region: ABC_tran_2; pfam12848 744872001789 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 744872001790 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04537 744872001791 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 744872001792 ATP binding site [chemical binding]; other site 744872001793 Mg++ binding site [ion binding]; other site 744872001794 motif III; other site 744872001795 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 744872001796 nucleotide binding region [chemical binding]; other site 744872001797 ATP-binding site [chemical binding]; other site 744872001798 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 744872001799 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 744872001800 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 744872001801 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 744872001802 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 744872001803 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 744872001804 putative dimer interface [polypeptide binding]; other site 744872001805 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 744872001806 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 744872001807 putative dimer interface [polypeptide binding]; other site 744872001808 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 744872001809 B12 binding site [chemical binding]; other site 744872001810 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 744872001811 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 744872001812 FeS/SAM binding site; other site 744872001813 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 744872001814 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 744872001815 Cl- selectivity filter; other site 744872001816 Cl- binding residues [ion binding]; other site 744872001817 pore gating glutamate residue; other site 744872001818 dimer interface [polypeptide binding]; other site 744872001819 H+/Cl- coupling transport residue; other site 744872001820 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 744872001821 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 744872001822 Mo-co oxidoreductase dimerisation domain; Region: Mo-co_dimer; pfam03404 744872001823 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 744872001824 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 744872001825 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 744872001826 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 744872001827 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 744872001828 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 744872001829 S-adenosylmethionine binding site [chemical binding]; other site 744872001830 PilZ domain; Region: PilZ; pfam07238 744872001831 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 744872001832 non-specific DNA binding site [nucleotide binding]; other site 744872001833 salt bridge; other site 744872001834 sequence-specific DNA binding site [nucleotide binding]; other site 744872001835 Cupin domain; Region: Cupin_2; pfam07883 744872001836 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 744872001837 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 744872001838 ABC-ATPase subunit interface; other site 744872001839 putative PBP binding regions; other site 744872001840 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 744872001841 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 744872001842 intersubunit interface [polypeptide binding]; other site 744872001843 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 744872001844 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 744872001845 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 744872001846 metal coordination site [ion binding]; other site 744872001847 Uncharacterized conserved protein [Function unknown]; Region: COG0327 744872001848 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 744872001849 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 744872001850 Catalytic NodB homology domain of Clostridium thermocellum acetylxylan esterase and its bacterial homologs; Region: CE4_CtAXE_like; cd10954 744872001851 NodB motif; other site 744872001852 active site 744872001853 catalytic site [active] 744872001854 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 744872001855 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 744872001856 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872001857 dimer interface [polypeptide binding]; other site 744872001858 conserved gate region; other site 744872001859 ABC-ATPase subunit interface; other site 744872001860 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872001861 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872001862 dimer interface [polypeptide binding]; other site 744872001863 conserved gate region; other site 744872001864 putative PBP binding loops; other site 744872001865 ABC-ATPase subunit interface; other site 744872001866 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872001867 mannonate dehydratase; Provisional; Region: PRK03906 744872001868 mannonate dehydratase; Region: uxuA; TIGR00695 744872001869 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 744872001870 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 744872001871 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 744872001872 Probable beta-xylosidase; Provisional; Region: PLN03080 744872001873 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 744872001874 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 744872001875 D-mannonate oxidoreductase; Provisional; Region: PRK08277 744872001876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 744872001877 NAD(P) binding site [chemical binding]; other site 744872001878 active site 744872001879 Transcriptional regulators [Transcription]; Region: GntR; COG1802 744872001880 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 744872001881 DNA-binding site [nucleotide binding]; DNA binding site 744872001882 FCD domain; Region: FCD; pfam07729 744872001883 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 744872001884 putative active site [active] 744872001885 membrane protein FdrA; Validated; Region: PRK06091 744872001886 CoA binding domain; Region: CoA_binding; cl17356 744872001887 CoA-ligase; Region: Ligase_CoA; pfam00549 744872001888 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 744872001889 Putative cyclase; Region: Cyclase; pfam04199 744872001890 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 744872001891 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 744872001892 active site 744872001893 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 744872001894 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 744872001895 Transcriptional regulators [Transcription]; Region: GntR; COG1802 744872001896 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 744872001897 DNA-binding site [nucleotide binding]; DNA binding site 744872001898 FCD domain; Region: FCD; pfam07729 744872001899 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 744872001900 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 744872001901 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 744872001902 Cupin domain; Region: Cupin_2; cl17218 744872001903 Pectinesterase; Region: Pectinesterase; pfam01095 744872001904 putative pectinesterase; Region: PLN02432; cl01911 744872001905 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872001906 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872001907 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872001908 dimer interface [polypeptide binding]; other site 744872001909 conserved gate region; other site 744872001910 putative PBP binding loops; other site 744872001911 ABC-ATPase subunit interface; other site 744872001912 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872001913 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872001914 dimer interface [polypeptide binding]; other site 744872001915 conserved gate region; other site 744872001916 putative PBP binding loops; other site 744872001917 ABC-ATPase subunit interface; other site 744872001918 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 744872001919 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 744872001920 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 744872001921 active site 744872001922 catalytic site [active] 744872001923 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872001924 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 744872001925 DNA binding site [nucleotide binding] 744872001926 domain linker motif; other site 744872001927 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 744872001928 dimerization interface [polypeptide binding]; other site 744872001929 ligand binding site [chemical binding]; other site 744872001930 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 744872001931 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 744872001932 active site 744872001933 intersubunit interface [polypeptide binding]; other site 744872001934 catalytic residue [active] 744872001935 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 744872001936 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 744872001937 substrate binding site [chemical binding]; other site 744872001938 ATP binding site [chemical binding]; other site 744872001939 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 744872001940 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 744872001941 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 744872001942 NADP binding site [chemical binding]; other site 744872001943 homodimer interface [polypeptide binding]; other site 744872001944 active site 744872001945 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 744872001946 Transcriptional regulator [Transcription]; Region: IclR; COG1414 744872001947 Bacterial transcriptional regulator; Region: IclR; pfam01614 744872001948 Glucuronate isomerase; Region: UxaC; pfam02614 744872001949 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 744872001950 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 744872001951 Sodium Bile acid symporter family; Region: SBF; cl17470 744872001952 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872001953 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 744872001954 ligand binding site [chemical binding]; other site 744872001955 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872001956 Protein of unknown function (DUF1390); Region: DUF1390; pfam07150 744872001957 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 744872001958 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872001959 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 744872001960 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 744872001961 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 744872001962 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 744872001963 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 744872001964 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872001965 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872001966 dimer interface [polypeptide binding]; other site 744872001967 conserved gate region; other site 744872001968 putative PBP binding loops; other site 744872001969 ABC-ATPase subunit interface; other site 744872001970 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872001971 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 744872001972 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 744872001973 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 744872001974 Metal-binding active site; metal-binding site 744872001975 NTPase; Region: NTPase_1; cl17478 744872001976 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 744872001977 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 744872001978 Sodium Bile acid symporter family; Region: SBF; cl17470 744872001979 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 744872001980 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 744872001981 Walker A motif; other site 744872001982 ATP binding site [chemical binding]; other site 744872001983 Walker B motif; other site 744872001984 ferredoxin; Provisional; Region: PRK08764 744872001985 Putative Fe-S cluster; Region: FeS; cl17515 744872001986 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 744872001987 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 744872001988 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 744872001989 electron transport complex RsxE subunit; Provisional; Region: PRK12405 744872001990 FMN-binding domain; Region: FMN_bind; cl01081 744872001991 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 744872001992 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 744872001993 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 744872001994 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 744872001995 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872001996 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872001997 dimer interface [polypeptide binding]; other site 744872001998 putative CheW interface [polypeptide binding]; other site 744872001999 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 744872002000 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 744872002001 catalytic triad [active] 744872002002 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 744872002003 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 744872002004 active site 744872002005 HIGH motif; other site 744872002006 nucleotide binding site [chemical binding]; other site 744872002007 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 744872002008 KMSKS motif; other site 744872002009 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 744872002010 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 744872002011 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 744872002012 dimer interface [polypeptide binding]; other site 744872002013 active site 744872002014 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 744872002015 catalytic residues [active] 744872002016 substrate binding site [chemical binding]; other site 744872002017 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK07085 744872002018 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 744872002019 active site 744872002020 ADP/pyrophosphate binding site [chemical binding]; other site 744872002021 dimerization interface [polypeptide binding]; other site 744872002022 allosteric effector site; other site 744872002023 fructose-1,6-bisphosphate binding site; other site 744872002024 AAK_UMPK-PyrH-Pf: UMP kinase (UMPK)-Pf, the mostly archaeal uridine monophosphate kinase (uridylate kinase) enzymes that catalyze UMP phosphorylation and play a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back...; Region: AAK_UMPK-PyrH-Pf; cd04253 744872002025 nucleotide binding site [chemical binding]; other site 744872002026 homodimeric interface [polypeptide binding]; other site 744872002027 uridine monophosphate binding site [chemical binding]; other site 744872002028 IPT/TIG domain; Region: TIG; pfam01833 744872002029 IPT/TIG domain; Region: TIG; pfam01833 744872002030 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 744872002031 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 744872002032 Putative zinc-finger; Region: zf-HC2; pfam13490 744872002033 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 744872002034 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 744872002035 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 744872002036 DNA binding residues [nucleotide binding] 744872002037 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14536 744872002038 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 744872002039 active site 744872002040 HIGH motif; other site 744872002041 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 744872002042 KMSKS motif; other site 744872002043 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 744872002044 tRNA binding surface [nucleotide binding]; other site 744872002045 anticodon binding site; other site 744872002046 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 744872002047 FAD binding domain; Region: FAD_binding_4; pfam01565 744872002048 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 744872002049 FecR protein; Region: FecR; pfam04773 744872002050 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 744872002051 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 744872002052 ligand binding site [chemical binding]; other site 744872002053 flexible hinge region; other site 744872002054 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 744872002055 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 744872002056 ligand binding site [chemical binding]; other site 744872002057 flexible hinge region; other site 744872002058 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 744872002059 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 744872002060 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 744872002061 TPR motif; other site 744872002062 TPR repeat; Region: TPR_11; pfam13414 744872002063 binding surface 744872002064 PilZ domain; Region: PilZ; pfam07238 744872002065 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 744872002066 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 744872002067 active site 744872002068 metal binding site [ion binding]; metal-binding site 744872002069 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 744872002070 hypothetical protein; Reviewed; Region: PRK00024 744872002071 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 744872002072 MPN+ (JAMM) motif; other site 744872002073 Zinc-binding site [ion binding]; other site 744872002074 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 744872002075 Ferritin-like domain; Region: Ferritin; pfam00210 744872002076 ferroxidase diiron center [ion binding]; other site 744872002077 PEGA domain; Region: PEGA; pfam08308 744872002078 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 744872002079 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 744872002080 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 744872002081 substrate-cofactor binding pocket; other site 744872002082 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872002083 catalytic residue [active] 744872002084 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 744872002085 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 744872002086 DNA binding residues [nucleotide binding] 744872002087 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 744872002088 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 744872002089 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 744872002090 protein binding site [polypeptide binding]; other site 744872002091 FecR protein; Region: FecR; pfam04773 744872002092 PQQ-like domain; Region: PQQ_2; pfam13360 744872002093 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 744872002094 active site 744872002095 PQQ-like domain; Region: PQQ_2; pfam13360 744872002096 Trp docking motif [polypeptide binding]; other site 744872002097 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 744872002098 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 744872002099 CoA binding domain; Region: CoA_binding_2; pfam13380 744872002100 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 744872002101 Domain of unknown function DUF77; Region: DUF77; pfam01910 744872002102 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 744872002103 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 744872002104 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 744872002105 Walker A/P-loop; other site 744872002106 ATP binding site [chemical binding]; other site 744872002107 Q-loop/lid; other site 744872002108 ABC transporter signature motif; other site 744872002109 Walker B; other site 744872002110 D-loop; other site 744872002111 H-loop/switch region; other site 744872002112 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 744872002113 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 744872002114 Walker A/P-loop; other site 744872002115 ATP binding site [chemical binding]; other site 744872002116 Q-loop/lid; other site 744872002117 ABC transporter signature motif; other site 744872002118 Walker B; other site 744872002119 D-loop; other site 744872002120 H-loop/switch region; other site 744872002121 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 744872002122 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 744872002123 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 744872002124 putative active site [active] 744872002125 heme pocket [chemical binding]; other site 744872002126 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 744872002127 dimer interface [polypeptide binding]; other site 744872002128 phosphorylation site [posttranslational modification] 744872002129 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872002130 ATP binding site [chemical binding]; other site 744872002131 Mg2+ binding site [ion binding]; other site 744872002132 G-X-G motif; other site 744872002133 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 744872002134 anti sigma factor interaction site; other site 744872002135 regulatory phosphorylation site [posttranslational modification]; other site 744872002136 Response regulator receiver domain; Region: Response_reg; pfam00072 744872002137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872002138 active site 744872002139 phosphorylation site [posttranslational modification] 744872002140 intermolecular recognition site; other site 744872002141 dimerization interface [polypeptide binding]; other site 744872002142 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 744872002143 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 744872002144 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 744872002145 Walker A/P-loop; other site 744872002146 ATP binding site [chemical binding]; other site 744872002147 Q-loop/lid; other site 744872002148 ABC transporter signature motif; other site 744872002149 Walker B; other site 744872002150 D-loop; other site 744872002151 H-loop/switch region; other site 744872002152 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 744872002153 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 744872002154 Walker A/P-loop; other site 744872002155 ATP binding site [chemical binding]; other site 744872002156 Q-loop/lid; other site 744872002157 ABC transporter signature motif; other site 744872002158 Walker B; other site 744872002159 D-loop; other site 744872002160 H-loop/switch region; other site 744872002161 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 744872002162 Predicted membrane protein [Function unknown]; Region: COG4684 744872002163 Type III pantothenate kinase; Region: Pan_kinase; cl17198 744872002164 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 744872002165 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 744872002166 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 744872002167 motif II; other site 744872002168 Ferritin-like domain; Region: Ferritin; pfam00210 744872002169 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 744872002170 dimerization interface [polypeptide binding]; other site 744872002171 DPS ferroxidase diiron center [ion binding]; other site 744872002172 ion pore; other site 744872002173 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 744872002174 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 744872002175 gating phenylalanine in ion channel; other site 744872002176 Uncharacterized conserved protein [Function unknown]; Region: COG1433 744872002177 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 744872002178 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 744872002179 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 744872002180 switch II; other site 744872002181 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 744872002182 4Fe-4S binding domain; Region: Fer4; cl02805 744872002183 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 744872002184 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 744872002185 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 744872002186 switch II; other site 744872002187 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 744872002188 PAS domain; Region: PAS_9; pfam13426 744872002189 putative active site [active] 744872002190 heme pocket [chemical binding]; other site 744872002191 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 744872002192 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 744872002193 Walker A motif; other site 744872002194 ATP binding site [chemical binding]; other site 744872002195 Walker B motif; other site 744872002196 arginine finger; other site 744872002197 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 744872002198 peroxiredoxin; Provisional; Region: PRK13189 744872002199 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 744872002200 dimer interface [polypeptide binding]; other site 744872002201 decamer (pentamer of dimers) interface [polypeptide binding]; other site 744872002202 catalytic triad [active] 744872002203 GAF domain; Region: GAF; pfam01590 744872002204 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 744872002205 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 744872002206 Walker A motif; other site 744872002207 ATP binding site [chemical binding]; other site 744872002208 Walker B motif; other site 744872002209 arginine finger; other site 744872002210 Acetokinase family; Region: Acetate_kinase; cl17229 744872002211 propionate/acetate kinase; Provisional; Region: PRK12379 744872002212 Rv0623-like transcription factor; Region: PSK_trans_fac; cl01834 744872002213 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 744872002214 putative active site [active] 744872002215 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872002216 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872002217 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872002218 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872002219 dimer interface [polypeptide binding]; other site 744872002220 putative PBP binding loops; other site 744872002221 ABC-ATPase subunit interface; other site 744872002222 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872002223 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 744872002224 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 744872002225 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 744872002226 Transposase domain (DUF772); Region: DUF772; pfam05598 744872002227 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872002228 Predicted transcriptional regulator [Transcription]; Region: COG4189 744872002229 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 744872002230 dimerization interface [polypeptide binding]; other site 744872002231 putative DNA binding site [nucleotide binding]; other site 744872002232 putative Zn2+ binding site [ion binding]; other site 744872002233 Integrase core domain; Region: rve; pfam00665 744872002234 Integrase core domain; Region: rve_3; pfam13683 744872002235 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 744872002236 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 744872002237 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 744872002238 oligoendopeptidase F; Region: pepF; TIGR00181 744872002239 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 744872002240 active site 744872002241 Zn binding site [ion binding]; other site 744872002242 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 744872002243 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 744872002244 dimer interface [polypeptide binding]; other site 744872002245 active site 744872002246 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 744872002247 YibE/F-like protein; Region: YibE_F; pfam07907 744872002248 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872002249 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872002250 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 744872002251 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872002252 putative PBP binding loops; other site 744872002253 dimer interface [polypeptide binding]; other site 744872002254 ABC-ATPase subunit interface; other site 744872002255 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872002256 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872002257 dimer interface [polypeptide binding]; other site 744872002258 conserved gate region; other site 744872002259 putative PBP binding loops; other site 744872002260 ABC-ATPase subunit interface; other site 744872002261 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872002262 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 744872002263 DNA binding site [nucleotide binding] 744872002264 domain linker motif; other site 744872002265 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 744872002266 ligand binding site [chemical binding]; other site 744872002267 dimerization interface [polypeptide binding]; other site 744872002268 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 744872002269 Protein export membrane protein; Region: SecD_SecF; cl14618 744872002270 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 744872002271 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 744872002272 E3 interaction surface; other site 744872002273 lipoyl attachment site [posttranslational modification]; other site 744872002274 HlyD family secretion protein; Region: HlyD_3; pfam13437 744872002275 Outer membrane efflux protein; Region: OEP; pfam02321 744872002276 Outer membrane efflux protein; Region: OEP; pfam02321 744872002277 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 744872002278 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872002279 active site 744872002280 phosphorylation site [posttranslational modification] 744872002281 intermolecular recognition site; other site 744872002282 dimerization interface [polypeptide binding]; other site 744872002283 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 744872002284 DNA binding site [nucleotide binding] 744872002285 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872002286 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 744872002287 dimerization interface [polypeptide binding]; other site 744872002288 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 744872002289 dimer interface [polypeptide binding]; other site 744872002290 phosphorylation site [posttranslational modification] 744872002291 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872002292 ATP binding site [chemical binding]; other site 744872002293 Mg2+ binding site [ion binding]; other site 744872002294 G-X-G motif; other site 744872002295 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872002296 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 744872002297 DNA binding site [nucleotide binding] 744872002298 domain linker motif; other site 744872002299 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 744872002300 dimerization interface [polypeptide binding]; other site 744872002301 ligand binding site [chemical binding]; other site 744872002302 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872002303 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872002304 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872002305 dimer interface [polypeptide binding]; other site 744872002306 conserved gate region; other site 744872002307 putative PBP binding loops; other site 744872002308 ABC-ATPase subunit interface; other site 744872002309 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872002310 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872002311 dimer interface [polypeptide binding]; other site 744872002312 conserved gate region; other site 744872002313 putative PBP binding loops; other site 744872002314 ABC-ATPase subunit interface; other site 744872002315 putative alpha-glucosidase; Provisional; Region: PRK10658 744872002316 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 744872002317 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 744872002318 active site 744872002319 homotrimer interface [polypeptide binding]; other site 744872002320 catalytic site [active] 744872002321 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 744872002322 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 744872002323 active site 744872002324 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 744872002325 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 744872002326 active site 744872002327 catalytic tetrad [active] 744872002328 Bacterial Ig-like domain; Region: Big_5; pfam13205 744872002329 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 744872002330 nucleophilic elbow; other site 744872002331 catalytic triad; other site 744872002332 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 744872002333 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872002334 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 744872002335 dimer interface [polypeptide binding]; other site 744872002336 phosphorylation site [posttranslational modification] 744872002337 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872002338 ATP binding site [chemical binding]; other site 744872002339 Mg2+ binding site [ion binding]; other site 744872002340 G-X-G motif; other site 744872002341 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 744872002342 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872002343 active site 744872002344 phosphorylation site [posttranslational modification] 744872002345 intermolecular recognition site; other site 744872002346 dimerization interface [polypeptide binding]; other site 744872002347 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 744872002348 DNA binding residues [nucleotide binding] 744872002349 dimerization interface [polypeptide binding]; other site 744872002350 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 744872002351 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 744872002352 active site 744872002353 metal binding site [ion binding]; metal-binding site 744872002354 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 744872002355 active site 744872002356 metal binding site [ion binding]; metal-binding site 744872002357 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 744872002358 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 744872002359 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 744872002360 Major Facilitator Superfamily; Region: MFS_1; pfam07690 744872002361 putative substrate translocation pore; other site 744872002362 HEAT repeats; Region: HEAT_2; pfam13646 744872002363 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 744872002364 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872002365 Walker A/P-loop; other site 744872002366 ATP binding site [chemical binding]; other site 744872002367 Q-loop/lid; other site 744872002368 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 744872002369 ABC transporter signature motif; other site 744872002370 Walker B; other site 744872002371 D-loop; other site 744872002372 ABC transporter; Region: ABC_tran_2; pfam12848 744872002373 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 744872002374 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 744872002375 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 744872002376 NAD binding site [chemical binding]; other site 744872002377 homodimer interface [polypeptide binding]; other site 744872002378 active site 744872002379 substrate binding site [chemical binding]; other site 744872002380 diaminopimelate aminotransferase; Provisional; Region: PRK13983 744872002381 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like1; cd05650 744872002382 metal binding site [ion binding]; metal-binding site 744872002383 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 744872002384 dimerization interface [polypeptide binding]; other site 744872002385 active site 744872002386 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 744872002387 FeS/SAM binding site; other site 744872002388 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 744872002389 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 744872002390 active site 744872002391 nucleotide binding site [chemical binding]; other site 744872002392 HIGH motif; other site 744872002393 KMSKS motif; other site 744872002394 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 744872002395 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 744872002396 ligand binding site [chemical binding]; other site 744872002397 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 744872002398 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 744872002399 Walker A/P-loop; other site 744872002400 ATP binding site [chemical binding]; other site 744872002401 Q-loop/lid; other site 744872002402 ABC transporter signature motif; other site 744872002403 Walker B; other site 744872002404 D-loop; other site 744872002405 H-loop/switch region; other site 744872002406 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872002407 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872002408 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 744872002409 TM-ABC transporter signature motif; other site 744872002410 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872002411 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 744872002412 TM-ABC transporter signature motif; other site 744872002413 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 744872002414 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 744872002415 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 744872002416 dimer interface [polypeptide binding]; other site 744872002417 FMN binding site [chemical binding]; other site 744872002418 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 744872002419 metal binding site 2 [ion binding]; metal-binding site 744872002420 putative DNA binding helix; other site 744872002421 metal binding site 1 [ion binding]; metal-binding site 744872002422 dimer interface [polypeptide binding]; other site 744872002423 structural Zn2+ binding site [ion binding]; other site 744872002424 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872002425 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 744872002426 DNA binding site [nucleotide binding] 744872002427 domain linker motif; other site 744872002428 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 744872002429 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 744872002430 active site 744872002431 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 744872002432 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 744872002433 HAMP domain; Region: HAMP; pfam00672 744872002434 PAS domain; Region: PAS; smart00091 744872002435 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 744872002436 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 744872002437 dimer interface [polypeptide binding]; other site 744872002438 phosphorylation site [posttranslational modification] 744872002439 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872002440 ATP binding site [chemical binding]; other site 744872002441 Mg2+ binding site [ion binding]; other site 744872002442 G-X-G motif; other site 744872002443 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 744872002444 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872002445 active site 744872002446 phosphorylation site [posttranslational modification] 744872002447 intermolecular recognition site; other site 744872002448 dimerization interface [polypeptide binding]; other site 744872002449 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 744872002450 DNA binding site [nucleotide binding] 744872002451 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 744872002452 PhoU domain; Region: PhoU; pfam01895 744872002453 PhoU domain; Region: PhoU; pfam01895 744872002454 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 744872002455 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 744872002456 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 744872002457 Walker A motif; other site 744872002458 ATP binding site [chemical binding]; other site 744872002459 Walker B motif; other site 744872002460 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 744872002461 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 744872002462 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 744872002463 active site 744872002464 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 744872002465 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 744872002466 active site 744872002467 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 744872002468 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 744872002469 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 744872002470 ligand binding site [chemical binding]; other site 744872002471 flexible hinge region; other site 744872002472 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 744872002473 Tetratricopeptide repeat; Region: TPR_12; pfam13424 744872002474 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 744872002475 binding surface 744872002476 TPR motif; other site 744872002477 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 744872002478 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 744872002479 ligand binding site [chemical binding]; other site 744872002480 flexible hinge region; other site 744872002481 PAS domain; Region: PAS; smart00091 744872002482 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 744872002483 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 744872002484 putative active site [active] 744872002485 heme pocket [chemical binding]; other site 744872002486 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 744872002487 Histidine kinase; Region: HisKA_2; pfam07568 744872002488 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872002489 ATP binding site [chemical binding]; other site 744872002490 Mg2+ binding site [ion binding]; other site 744872002491 G-X-G motif; other site 744872002492 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 744872002493 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 744872002494 active site 744872002495 catalytic site [active] 744872002496 pyruvate kinase; Provisional; Region: PRK06354 744872002497 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 744872002498 domain interfaces; other site 744872002499 active site 744872002500 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 744872002501 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 744872002502 active site 744872002503 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 744872002504 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 744872002505 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 744872002506 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 744872002507 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 744872002508 active site 744872002509 HIGH motif; other site 744872002510 KMSK motif region; other site 744872002511 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 744872002512 tRNA binding surface [nucleotide binding]; other site 744872002513 anticodon binding site; other site 744872002514 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 744872002515 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 744872002516 Protein of unknown function (DUF464); Region: DUF464; pfam04327 744872002517 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 744872002518 GTPase CgtA; Reviewed; Region: obgE; PRK12299 744872002519 GTP1/OBG; Region: GTP1_OBG; pfam01018 744872002520 Obg GTPase; Region: Obg; cd01898 744872002521 G1 box; other site 744872002522 GTP/Mg2+ binding site [chemical binding]; other site 744872002523 Switch I region; other site 744872002524 G2 box; other site 744872002525 G3 box; other site 744872002526 Switch II region; other site 744872002527 G4 box; other site 744872002528 G5 box; other site 744872002529 putative nicotinate-nucleotide adenylyltransferase; Validated; Region: nadD; PRK07152 744872002530 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 744872002531 active site 744872002532 (T/H)XGH motif; other site 744872002533 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872002534 Zn2+ binding site [ion binding]; other site 744872002535 Mg2+ binding site [ion binding]; other site 744872002536 Transcriptional regulator [Transcription]; Region: LytR; COG1316 744872002537 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 744872002538 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 744872002539 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 744872002540 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 744872002541 regulatory protein SpoVG; Reviewed; Region: PRK13259 744872002542 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 744872002543 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 744872002544 5S rRNA interface [nucleotide binding]; other site 744872002545 CTC domain interface [polypeptide binding]; other site 744872002546 L16 interface [polypeptide binding]; other site 744872002547 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 744872002548 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 744872002549 Ligand Binding Site [chemical binding]; other site 744872002550 FtsH Extracellular; Region: FtsH_ext; pfam06480 744872002551 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 744872002552 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 744872002553 Walker A motif; other site 744872002554 ATP binding site [chemical binding]; other site 744872002555 Walker B motif; other site 744872002556 arginine finger; other site 744872002557 Peptidase family M41; Region: Peptidase_M41; pfam01434 744872002558 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 744872002559 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 744872002560 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 744872002561 protein binding site [polypeptide binding]; other site 744872002562 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 744872002563 anti sigma factor interaction site; other site 744872002564 regulatory phosphorylation site [posttranslational modification]; other site 744872002565 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 744872002566 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 744872002567 putative binding surface; other site 744872002568 active site 744872002569 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 744872002570 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872002571 ATP binding site [chemical binding]; other site 744872002572 Mg2+ binding site [ion binding]; other site 744872002573 G-X-G motif; other site 744872002574 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 744872002575 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 744872002576 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 744872002577 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 744872002578 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 744872002579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872002580 active site 744872002581 phosphorylation site [posttranslational modification] 744872002582 intermolecular recognition site; other site 744872002583 dimerization interface [polypeptide binding]; other site 744872002584 CheB methylesterase; Region: CheB_methylest; pfam01339 744872002585 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 744872002586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872002587 active site 744872002588 phosphorylation site [posttranslational modification] 744872002589 intermolecular recognition site; other site 744872002590 dimerization interface [polypeptide binding]; other site 744872002591 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 744872002592 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 744872002593 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872002594 active site 744872002595 phosphorylation site [posttranslational modification] 744872002596 intermolecular recognition site; other site 744872002597 dimerization interface [polypeptide binding]; other site 744872002598 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 744872002599 PAS domain; Region: PAS; smart00091 744872002600 putative active site [active] 744872002601 heme pocket [chemical binding]; other site 744872002602 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 744872002603 dimer interface [polypeptide binding]; other site 744872002604 phosphorylation site [posttranslational modification] 744872002605 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872002606 ATP binding site [chemical binding]; other site 744872002607 Mg2+ binding site [ion binding]; other site 744872002608 G-X-G motif; other site 744872002609 Response regulator receiver domain; Region: Response_reg; pfam00072 744872002610 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872002611 active site 744872002612 phosphorylation site [posttranslational modification] 744872002613 intermolecular recognition site; other site 744872002614 dimerization interface [polypeptide binding]; other site 744872002615 Transposase domain (DUF772); Region: DUF772; pfam05598 744872002616 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872002617 GTP-binding protein LepA; Provisional; Region: PRK05433 744872002618 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 744872002619 G1 box; other site 744872002620 putative GEF interaction site [polypeptide binding]; other site 744872002621 GTP/Mg2+ binding site [chemical binding]; other site 744872002622 Switch I region; other site 744872002623 G2 box; other site 744872002624 G3 box; other site 744872002625 Switch II region; other site 744872002626 G4 box; other site 744872002627 G5 box; other site 744872002628 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 744872002629 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 744872002630 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 744872002631 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 744872002632 SurA N-terminal domain; Region: SurA_N_3; cl07813 744872002633 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 744872002634 Uncharacterized conserved protein [Function unknown]; Region: COG3391 744872002635 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 744872002636 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 744872002637 active site 744872002638 catalytic tetrad [active] 744872002639 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 744872002640 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872002641 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 744872002642 DNA binding site [nucleotide binding] 744872002643 domain linker motif; other site 744872002644 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 744872002645 D-ribose pyranase; Provisional; Region: PRK11797 744872002646 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 744872002647 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872002648 Walker A/P-loop; other site 744872002649 ATP binding site [chemical binding]; other site 744872002650 Q-loop/lid; other site 744872002651 ABC transporter signature motif; other site 744872002652 Walker B; other site 744872002653 D-loop; other site 744872002654 H-loop/switch region; other site 744872002655 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872002656 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872002657 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872002658 TM-ABC transporter signature motif; other site 744872002659 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 744872002660 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 744872002661 ligand binding site [chemical binding]; other site 744872002662 dimerization interface [polypeptide binding]; other site 744872002663 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 744872002664 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 744872002665 substrate binding site [chemical binding]; other site 744872002666 dimer interface [polypeptide binding]; other site 744872002667 ATP binding site [chemical binding]; other site 744872002668 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 744872002669 active site 744872002670 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 744872002671 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 744872002672 Predicted permease; Region: DUF318; cl17795 744872002673 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 744872002674 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 744872002675 active site 744872002676 catalytic residues [active] 744872002677 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 744872002678 4Fe-4S binding domain; Region: Fer4_6; pfam12837 744872002679 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872002680 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872002681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 744872002682 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872002683 ABC-ATPase subunit interface; other site 744872002684 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872002685 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872002686 dimer interface [polypeptide binding]; other site 744872002687 conserved gate region; other site 744872002688 putative PBP binding loops; other site 744872002689 ABC-ATPase subunit interface; other site 744872002690 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872002691 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 744872002692 DNA binding site [nucleotide binding] 744872002693 domain linker motif; other site 744872002694 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 744872002695 dimerization interface [polypeptide binding]; other site 744872002696 ligand binding site [chemical binding]; other site 744872002697 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 744872002698 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 744872002699 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 744872002700 beta-phosphoglucomutase; Region: bPGM; TIGR01990 744872002701 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 744872002702 motif II; other site 744872002703 PAS fold; Region: PAS_4; pfam08448 744872002704 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 744872002705 putative active site [active] 744872002706 heme pocket [chemical binding]; other site 744872002707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 744872002708 Histidine kinase; Region: HisKA_2; pfam07568 744872002709 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872002710 ATP binding site [chemical binding]; other site 744872002711 Mg2+ binding site [ion binding]; other site 744872002712 G-X-G motif; other site 744872002713 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 744872002714 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 744872002715 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 744872002716 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 744872002717 active site 744872002718 multimer interface [polypeptide binding]; other site 744872002719 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 744872002720 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 744872002721 putative ligand binding site [chemical binding]; other site 744872002722 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872002723 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 744872002724 TM-ABC transporter signature motif; other site 744872002725 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 744872002726 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 744872002727 TM-ABC transporter signature motif; other site 744872002728 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 744872002729 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 744872002730 Walker A/P-loop; other site 744872002731 ATP binding site [chemical binding]; other site 744872002732 Q-loop/lid; other site 744872002733 ABC transporter signature motif; other site 744872002734 Walker B; other site 744872002735 D-loop; other site 744872002736 H-loop/switch region; other site 744872002737 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 744872002738 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 744872002739 Walker A/P-loop; other site 744872002740 ATP binding site [chemical binding]; other site 744872002741 Q-loop/lid; other site 744872002742 ABC transporter signature motif; other site 744872002743 Walker B; other site 744872002744 D-loop; other site 744872002745 H-loop/switch region; other site 744872002746 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 744872002747 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 744872002748 putative catalytic cysteine [active] 744872002749 gamma-glutamyl kinase; Provisional; Region: PRK05429 744872002750 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 744872002751 nucleotide binding site [chemical binding]; other site 744872002752 homotetrameric interface [polypeptide binding]; other site 744872002753 putative phosphate binding site [ion binding]; other site 744872002754 putative allosteric binding site; other site 744872002755 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 744872002756 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 744872002757 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 744872002758 Coenzyme A binding pocket [chemical binding]; other site 744872002759 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 744872002760 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 744872002761 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 744872002762 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 744872002763 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 744872002764 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 744872002765 dimerization interface [polypeptide binding]; other site 744872002766 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872002767 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872002768 dimer interface [polypeptide binding]; other site 744872002769 putative CheW interface [polypeptide binding]; other site 744872002770 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 744872002771 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 744872002772 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 744872002773 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 744872002774 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 744872002775 DNA binding residues [nucleotide binding] 744872002776 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 744872002777 NodB motif; other site 744872002778 putative active site [active] 744872002779 putative catalytic site [active] 744872002780 Zn binding site [ion binding]; other site 744872002781 UGMP family protein; Validated; Region: PRK09604 744872002782 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 744872002783 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 744872002784 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 744872002785 P-loop; other site 744872002786 elongation factor G; Reviewed; Region: PRK00007 744872002787 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 744872002788 G1 box; other site 744872002789 putative GEF interaction site [polypeptide binding]; other site 744872002790 GTP/Mg2+ binding site [chemical binding]; other site 744872002791 Switch I region; other site 744872002792 G2 box; other site 744872002793 G3 box; other site 744872002794 Switch II region; other site 744872002795 G4 box; other site 744872002796 G5 box; other site 744872002797 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 744872002798 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 744872002799 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 744872002800 ParB-like nuclease domain; Region: ParB; smart00470 744872002801 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 744872002802 Transglycosylase; Region: Transgly; pfam00912 744872002803 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 744872002804 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 744872002805 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 744872002806 Peptidase family M23; Region: Peptidase_M23; pfam01551 744872002807 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 744872002808 4Fe-4S binding domain; Region: Fer4; cl02805 744872002809 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 744872002810 Cache domain; Region: Cache_1; pfam02743 744872002811 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872002812 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872002813 dimer interface [polypeptide binding]; other site 744872002814 putative CheW interface [polypeptide binding]; other site 744872002815 BPG-independent PGAM N-terminus (iPGM_N); Region: iPGM_N; cl17463 744872002816 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 744872002817 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 744872002818 active site 744872002819 phosphorylation site [posttranslational modification] 744872002820 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 744872002821 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 744872002822 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 744872002823 hypothetical protein; Provisional; Region: PRK08378 744872002824 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 744872002825 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 744872002826 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 744872002827 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 744872002828 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 744872002829 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 744872002830 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 744872002831 metal binding site [ion binding]; metal-binding site 744872002832 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 744872002833 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 744872002834 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 744872002835 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 744872002836 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 744872002837 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 744872002838 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 744872002839 ATP-grasp domain; Region: ATP-grasp_4; cl17255 744872002840 Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain; Region: MGS_CPS_I_III; cd01423 744872002841 probable substrate binding site [chemical binding]; other site 744872002842 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 744872002843 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 744872002844 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 744872002845 catalytic site [active] 744872002846 subunit interface [polypeptide binding]; other site 744872002847 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 744872002848 putative deacylase active site [active] 744872002849 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 744872002850 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 744872002851 Tetratricopeptide repeat; Region: TPR_12; pfam13424 744872002852 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 744872002853 binding surface 744872002854 TPR motif; other site 744872002855 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 744872002856 GAF domain; Region: GAF; pfam01590 744872002857 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 744872002858 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872002859 metal binding site [ion binding]; metal-binding site 744872002860 active site 744872002861 I-site; other site 744872002862 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 744872002863 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872002864 active site 744872002865 phosphorylation site [posttranslational modification] 744872002866 intermolecular recognition site; other site 744872002867 dimerization interface [polypeptide binding]; other site 744872002868 Integrin, beta chain; Region: Integrin_beta; cl17693 744872002869 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 744872002870 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 744872002871 heterotetramer interface [polypeptide binding]; other site 744872002872 active site pocket [active] 744872002873 cleavage site 744872002874 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 744872002875 feedback inhibition sensing region; other site 744872002876 homohexameric interface [polypeptide binding]; other site 744872002877 nucleotide binding site [chemical binding]; other site 744872002878 N-acetyl-L-glutamate binding site [chemical binding]; other site 744872002879 acetylornithine aminotransferase; Provisional; Region: PRK02627 744872002880 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 744872002881 inhibitor-cofactor binding pocket; inhibition site 744872002882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872002883 catalytic residue [active] 744872002884 argininosuccinate synthase; Provisional; Region: PRK13820 744872002885 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 744872002886 ANP binding site [chemical binding]; other site 744872002887 Substrate Binding Site II [chemical binding]; other site 744872002888 Substrate Binding Site I [chemical binding]; other site 744872002889 argininosuccinate lyase; Provisional; Region: PRK00855 744872002890 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 744872002891 active sites [active] 744872002892 tetramer interface [polypeptide binding]; other site 744872002893 AAA domain; Region: AAA_14; pfam13173 744872002894 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 744872002895 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 744872002896 HTH domain; Region: HTH_11; pfam08279 744872002897 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 744872002898 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 744872002899 NAD(P) binding site [chemical binding]; other site 744872002900 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 744872002901 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 744872002902 active site 744872002903 HIGH motif; other site 744872002904 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 744872002905 active site 744872002906 KMSKS motif; other site 744872002907 Arginase family; Region: Arginase; cd09989 744872002908 active site 744872002909 Mn binding site [ion binding]; other site 744872002910 oligomer interface [polypeptide binding]; other site 744872002911 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 744872002912 dimer interface [polypeptide binding]; other site 744872002913 ADP-ribose binding site [chemical binding]; other site 744872002914 active site 744872002915 nudix motif; other site 744872002916 metal binding site [ion binding]; metal-binding site 744872002917 glycyl-tRNA synthetase; Provisional; Region: PRK04173 744872002918 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 744872002919 dimer interface [polypeptide binding]; other site 744872002920 motif 1; other site 744872002921 active site 744872002922 motif 2; other site 744872002923 motif 3; other site 744872002924 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 744872002925 anticodon binding site; other site 744872002926 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 744872002927 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 744872002928 Predicted permease; Region: DUF318; cl17795 744872002929 Predicted permease; Region: DUF318; cl17795 744872002930 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 744872002931 active site 744872002932 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 744872002933 active site 744872002934 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 744872002935 non-specific DNA binding site [nucleotide binding]; other site 744872002936 salt bridge; other site 744872002937 sequence-specific DNA binding site [nucleotide binding]; other site 744872002938 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 744872002939 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 744872002940 Putative transposase; Region: Y2_Tnp; pfam04986 744872002941 Omptin family; Region: Omptin; cl01886 744872002942 Esterase/lipase [General function prediction only]; Region: COG1647 744872002943 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 744872002944 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 744872002945 Walker A motif; other site 744872002946 ATP binding site [chemical binding]; other site 744872002947 Walker B motif; other site 744872002948 arginine finger; other site 744872002949 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 744872002950 intersubunit interface [polypeptide binding]; other site 744872002951 active site 744872002952 catalytic residue [active] 744872002953 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 744872002954 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 744872002955 ligand binding site [chemical binding]; other site 744872002956 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 744872002957 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 744872002958 Walker A/P-loop; other site 744872002959 ATP binding site [chemical binding]; other site 744872002960 Q-loop/lid; other site 744872002961 ABC transporter signature motif; other site 744872002962 Walker B; other site 744872002963 D-loop; other site 744872002964 H-loop/switch region; other site 744872002965 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872002966 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872002967 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 744872002968 TM-ABC transporter signature motif; other site 744872002969 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872002970 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 744872002971 TM-ABC transporter signature motif; other site 744872002972 alanyl-tRNA synthetase; Provisional; Region: PRK01584 744872002973 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 744872002974 motif 1; other site 744872002975 active site 744872002976 motif 2; other site 744872002977 motif 3; other site 744872002978 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 744872002979 SurA N-terminal domain; Region: SurA_N; pfam09312 744872002980 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 744872002981 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 744872002982 putative RNA binding site [nucleotide binding]; other site 744872002983 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 744872002984 TPR motif; other site 744872002985 binding surface 744872002986 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 744872002987 binding surface 744872002988 TPR motif; other site 744872002989 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 744872002990 oligomerisation interface [polypeptide binding]; other site 744872002991 mobile loop; other site 744872002992 roof hairpin; other site 744872002993 SEC-C motif; Region: SEC-C; pfam02810 744872002994 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 744872002995 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 744872002996 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 744872002997 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 744872002998 DNA binding residues [nucleotide binding] 744872002999 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 744872003000 dimer interface [polypeptide binding]; other site 744872003001 active site 744872003002 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 744872003003 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 744872003004 DNA-binding site [nucleotide binding]; DNA binding site 744872003005 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 744872003006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872003007 homodimer interface [polypeptide binding]; other site 744872003008 catalytic residue [active] 744872003009 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 744872003010 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 744872003011 active site 744872003012 multimer interface [polypeptide binding]; other site 744872003013 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 744872003014 predicted active site [active] 744872003015 catalytic triad [active] 744872003016 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 744872003017 glutamate dehydrogenase; Provisional; Region: PRK09414 744872003018 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 744872003019 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 744872003020 NAD(P) binding site [chemical binding]; other site 744872003021 Repressor of nif and glnA expression [Transcription]; Region: COG1693 744872003022 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 744872003023 Domain of unknown function DUF128; Region: DUF128; pfam01995 744872003024 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 744872003025 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 744872003026 catalytic residues [active] 744872003027 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 744872003028 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 744872003029 non-specific DNA binding site [nucleotide binding]; other site 744872003030 salt bridge; other site 744872003031 sequence-specific DNA binding site [nucleotide binding]; other site 744872003032 Cupin domain; Region: Cupin_2; pfam07883 744872003033 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 744872003034 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 744872003035 substrate binding site [chemical binding]; other site 744872003036 ligand binding site [chemical binding]; other site 744872003037 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 744872003038 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 744872003039 substrate binding site [chemical binding]; other site 744872003040 MFS_1 like family; Region: MFS_1_like; pfam12832 744872003041 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 744872003042 Protein of unknown function (DUF554); Region: DUF554; pfam04474 744872003043 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 744872003044 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 744872003045 Walker A/P-loop; other site 744872003046 ATP binding site [chemical binding]; other site 744872003047 Q-loop/lid; other site 744872003048 ABC transporter signature motif; other site 744872003049 Walker B; other site 744872003050 D-loop; other site 744872003051 H-loop/switch region; other site 744872003052 TOBE domain; Region: TOBE_2; pfam08402 744872003053 CheD chemotactic sensory transduction; Region: CheD; cl00810 744872003054 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 744872003055 RNB domain; Region: RNB; pfam00773 744872003056 Aspartokinases [Amino acid transport and metabolism]; Region: LysC; COG0527 744872003057 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 744872003058 nucleotide binding site [chemical binding]; other site 744872003059 substrate binding site [chemical binding]; other site 744872003060 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 744872003061 dimer interface [polypeptide binding]; other site 744872003062 allosteric regulatory binding pocket; other site 744872003063 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 744872003064 dihydrodipicolinate reductase; Provisional; Region: PRK00048 744872003065 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 744872003066 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 744872003067 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 744872003068 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 744872003069 dimer interface [polypeptide binding]; other site 744872003070 active site 744872003071 catalytic residue [active] 744872003072 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 744872003073 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 744872003074 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 744872003075 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 744872003076 active site 744872003077 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 744872003078 substrate binding site [chemical binding]; other site 744872003079 catalytic residues [active] 744872003080 dimer interface [polypeptide binding]; other site 744872003081 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 744872003082 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 744872003083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872003084 homodimer interface [polypeptide binding]; other site 744872003085 catalytic residue [active] 744872003086 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 744872003087 active site 744872003088 putative transposase OrfB; Reviewed; Region: PHA02517 744872003089 HTH-like domain; Region: HTH_21; pfam13276 744872003090 Integrase core domain; Region: rve; pfam00665 744872003091 Integrase core domain; Region: rve_3; pfam13683 744872003092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 744872003093 Transposase; Region: HTH_Tnp_1; cl17663 744872003094 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 744872003095 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 744872003096 putative binding surface; other site 744872003097 active site 744872003098 P2 response regulator binding domain; Region: P2; pfam07194 744872003099 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 744872003100 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872003101 ATP binding site [chemical binding]; other site 744872003102 Mg2+ binding site [ion binding]; other site 744872003103 G-X-G motif; other site 744872003104 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 744872003105 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 744872003106 putative CheA interaction surface; other site 744872003107 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 744872003108 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 744872003109 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 744872003110 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 744872003111 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872003112 active site 744872003113 phosphorylation site [posttranslational modification] 744872003114 intermolecular recognition site; other site 744872003115 dimerization interface [polypeptide binding]; other site 744872003116 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 744872003117 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 744872003118 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 744872003119 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 744872003120 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 744872003121 putative ligand binding site [chemical binding]; other site 744872003122 putative NAD binding site [chemical binding]; other site 744872003123 catalytic site [active] 744872003124 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 744872003125 elongation factor P; Validated; Region: PRK00529 744872003126 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 744872003127 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 744872003128 RNA binding site [nucleotide binding]; other site 744872003129 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 744872003130 RNA binding site [nucleotide binding]; other site 744872003131 PAS domain; Region: PAS_9; pfam13426 744872003132 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 744872003133 dimer interface [polypeptide binding]; other site 744872003134 phosphorylation site [posttranslational modification] 744872003135 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872003136 ATP binding site [chemical binding]; other site 744872003137 Mg2+ binding site [ion binding]; other site 744872003138 G-X-G motif; other site 744872003139 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 744872003140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872003141 active site 744872003142 phosphorylation site [posttranslational modification] 744872003143 intermolecular recognition site; other site 744872003144 dimerization interface [polypeptide binding]; other site 744872003145 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 744872003146 Walker A motif; other site 744872003147 ATP binding site [chemical binding]; other site 744872003148 Walker B motif; other site 744872003149 arginine finger; other site 744872003150 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 744872003151 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 744872003152 CPxP motif; other site 744872003153 Sulphur transport; Region: Sulf_transp; pfam04143 744872003154 Sulphur transport; Region: Sulf_transp; pfam04143 744872003155 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 744872003156 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 744872003157 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 744872003158 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 744872003159 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 744872003160 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 744872003161 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 744872003162 beta-galactosidase; Region: BGL; TIGR03356 744872003163 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 744872003164 putative DNA binding site [nucleotide binding]; other site 744872003165 putative Zn2+ binding site [ion binding]; other site 744872003166 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 744872003167 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 744872003168 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 744872003169 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 744872003170 motif 1; other site 744872003171 dimer interface [polypeptide binding]; other site 744872003172 active site 744872003173 motif 2; other site 744872003174 motif 3; other site 744872003175 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 744872003176 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 744872003177 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 744872003178 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 744872003179 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 744872003180 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 744872003181 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 744872003182 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 744872003183 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 744872003184 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 744872003185 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 744872003186 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 744872003187 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 744872003188 active site 744872003189 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 744872003190 AMMECR1; Region: AMMECR1; pfam01871 744872003191 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 744872003192 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 744872003193 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 744872003194 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 744872003195 GatB domain; Region: GatB_Yqey; smart00845 744872003196 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 744872003197 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 744872003198 Dimer interface [polypeptide binding]; other site 744872003199 anticodon binding site; other site 744872003200 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 744872003201 motif 1; other site 744872003202 dimer interface [polypeptide binding]; other site 744872003203 active site 744872003204 motif 2; other site 744872003205 motif 3; other site 744872003206 Cupin domain; Region: Cupin_2; pfam07883 744872003207 Hexokinase [Carbohydrate transport and metabolism]; Region: COG5026 744872003208 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 744872003209 nucleotide binding site [chemical binding]; other site 744872003210 Hexokinase; Region: Hexokinase_2; pfam03727 744872003211 Hemerythrin; Region: Hemerythrin; cd12107 744872003212 Fe binding site [ion binding]; other site 744872003213 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 744872003214 Uncharacterized conserved protein [Function unknown]; Region: COG2461 744872003215 Family of unknown function (DUF438); Region: DUF438; pfam04282 744872003216 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 744872003217 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 744872003218 putative active site [active] 744872003219 heme pocket [chemical binding]; other site 744872003220 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 744872003221 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 744872003222 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 744872003223 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 744872003224 putative active site [active] 744872003225 putative metal binding site [ion binding]; other site 744872003226 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872003227 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 744872003228 TPR motif; other site 744872003229 binding surface 744872003230 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872003231 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 744872003232 putative ligand binding pocket/active site [active] 744872003233 putative metal binding site [ion binding]; other site 744872003234 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 744872003235 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 744872003236 dimerization interface [polypeptide binding]; other site 744872003237 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 744872003238 cyclase homology domain; Region: CHD; cd07302 744872003239 nucleotidyl binding site; other site 744872003240 metal binding site [ion binding]; metal-binding site 744872003241 dimer interface [polypeptide binding]; other site 744872003242 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 744872003243 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 744872003244 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 744872003245 Domain of unknown function (DUF814); Region: DUF814; pfam05670 744872003246 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 744872003247 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 744872003248 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 744872003249 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 744872003250 THF binding site; other site 744872003251 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 744872003252 substrate binding site [chemical binding]; other site 744872003253 THF binding site; other site 744872003254 zinc-binding site [ion binding]; other site 744872003255 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 744872003256 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 744872003257 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 744872003258 active site 744872003259 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 744872003260 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 744872003261 Peptidase family U32; Region: Peptidase_U32; pfam01136 744872003262 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 744872003263 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 744872003264 HAMP domain; Region: HAMP; pfam00672 744872003265 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872003266 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872003267 dimer interface [polypeptide binding]; other site 744872003268 putative CheW interface [polypeptide binding]; other site 744872003269 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 744872003270 catalytic motif [active] 744872003271 Zn binding site [ion binding]; other site 744872003272 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 744872003273 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 744872003274 substrate binding site [chemical binding]; other site 744872003275 ATP binding site [chemical binding]; other site 744872003276 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 744872003277 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 744872003278 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 744872003279 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 744872003280 putative Zn2+ binding site [ion binding]; other site 744872003281 putative DNA binding site [nucleotide binding]; other site 744872003282 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 744872003283 putative active site [active] 744872003284 putative metal binding residues [ion binding]; other site 744872003285 signature motif; other site 744872003286 putative triphosphate binding site [ion binding]; other site 744872003287 dimer interface [polypeptide binding]; other site 744872003288 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 744872003289 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 744872003290 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 744872003291 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 744872003292 Peptidase family M23; Region: Peptidase_M23; pfam01551 744872003293 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 744872003294 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 744872003295 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 744872003296 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 744872003297 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 744872003298 DNA binding residues [nucleotide binding] 744872003299 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 744872003300 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 744872003301 active site 744872003302 catalytic site [active] 744872003303 substrate binding site [chemical binding]; other site 744872003304 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 744872003305 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 744872003306 active site 744872003307 substrate binding site [chemical binding]; other site 744872003308 metal binding site [ion binding]; metal-binding site 744872003309 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 744872003310 pyruvate carboxylase subunit B; Validated; Region: PRK09282 744872003311 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 744872003312 active site 744872003313 catalytic residues [active] 744872003314 metal binding site [ion binding]; metal-binding site 744872003315 homodimer binding site [polypeptide binding]; other site 744872003316 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 744872003317 carboxyltransferase (CT) interaction site; other site 744872003318 biotinylation site [posttranslational modification]; other site 744872003319 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 744872003320 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 744872003321 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 744872003322 active site 744872003323 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 744872003324 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 744872003325 RNA/DNA hybrid binding site [nucleotide binding]; other site 744872003326 active site 744872003327 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 744872003328 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 744872003329 active site 744872003330 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 744872003331 substrate binding site [chemical binding]; other site 744872003332 metal binding site [ion binding]; metal-binding site 744872003333 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 744872003334 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 744872003335 Methyltransferase domain; Region: Methyltransf_23; pfam13489 744872003336 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 744872003337 S-adenosylmethionine binding site [chemical binding]; other site 744872003338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 744872003339 Peptidase family M23; Region: Peptidase_M23; pfam01551 744872003340 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 744872003341 active site 744872003342 catalytic motif [active] 744872003343 Zn binding site [ion binding]; other site 744872003344 Helix-turn-helix domain; Region: HTH_17; pfam12728 744872003345 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 744872003346 active site 744872003347 phosphorylation site [posttranslational modification] 744872003348 Thymidine kinase [Nucleotide transport and metabolism]; Region: Tdk; COG1435 744872003349 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 744872003350 pseudouridine synthase; Region: TIGR00093 744872003351 active site 744872003352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 744872003353 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 744872003354 Uncharacterized conserved protein [Function unknown]; Region: COG1543 744872003355 active site 744872003356 substrate binding site [chemical binding]; other site 744872003357 catalytic site [active] 744872003358 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 744872003359 Uncharacterized protein family (UPF0164); Region: UPF0164; pfam03687 744872003360 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 744872003361 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 744872003362 dimerization interface [polypeptide binding]; other site 744872003363 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 744872003364 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 744872003365 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872003366 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872003367 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 744872003368 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872003369 dimer interface [polypeptide binding]; other site 744872003370 ABC-ATPase subunit interface; other site 744872003371 putative PBP binding loops; other site 744872003372 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872003373 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872003374 dimer interface [polypeptide binding]; other site 744872003375 conserved gate region; other site 744872003376 putative PBP binding loops; other site 744872003377 ABC-ATPase subunit interface; other site 744872003378 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 744872003379 TPR motif; other site 744872003380 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872003381 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 744872003382 TPR motif; other site 744872003383 binding surface 744872003384 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 744872003385 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 744872003386 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 744872003387 HlyD family secretion protein; Region: HlyD_3; pfam13437 744872003388 Bacterial Ig-like domain; Region: Big_5; pfam13205 744872003389 Bacterial Ig-like domain; Region: Big_5; pfam13205 744872003390 Bacterial Ig-like domain; Region: Big_5; pfam13205 744872003391 Bacterial Ig-like domain; Region: Big_5; pfam13205 744872003392 Bacterial Ig-like domain; Region: Big_5; pfam13205 744872003393 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 744872003394 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 744872003395 Peptidase family M23; Region: Peptidase_M23; pfam01551 744872003396 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 744872003397 Transposase, Mutator family; Region: Transposase_mut; pfam00872 744872003398 MULE transposase domain; Region: MULE; pfam10551 744872003399 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 744872003400 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 744872003401 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 744872003402 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 744872003403 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 744872003404 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 744872003405 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 744872003406 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 744872003407 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 744872003408 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 744872003409 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 744872003410 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 744872003411 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 744872003412 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 744872003413 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 744872003414 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 744872003415 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 744872003416 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 744872003417 Ligand Binding Site [chemical binding]; other site 744872003418 Late competence development protein ComFB; Region: ComFB; pfam10719 744872003419 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 744872003420 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872003421 Zn2+ binding site [ion binding]; other site 744872003422 Mg2+ binding site [ion binding]; other site 744872003423 aconitate hydratase; Validated; Region: PRK07229 744872003424 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 744872003425 substrate binding site [chemical binding]; other site 744872003426 ligand binding site [chemical binding]; other site 744872003427 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 744872003428 substrate binding site [chemical binding]; other site 744872003429 PilZ domain; Region: PilZ; pfam07238 744872003430 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 744872003431 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872003432 Mg2+ binding site [ion binding]; other site 744872003433 G-X-G motif; other site 744872003434 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 744872003435 anti sigma factor interaction site; other site 744872003436 regulatory phosphorylation site [posttranslational modification]; other site 744872003437 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 744872003438 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 744872003439 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 744872003440 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 744872003441 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 744872003442 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 744872003443 ABC transporter; Region: ABC_tran_2; pfam12848 744872003444 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 744872003445 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 744872003446 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 744872003447 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 744872003448 DHH family; Region: DHH; pfam01368 744872003449 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 744872003450 Metallopeptidase family M24; Region: Peptidase_M24; pfam00557 744872003451 active site 744872003452 ornithine carbamoyltransferase; Validated; Region: PRK02102 744872003453 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 744872003454 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 744872003455 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 744872003456 TPR motif; other site 744872003457 binding surface 744872003458 Tetratricopeptide repeat; Region: TPR_12; pfam13424 744872003459 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 744872003460 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 744872003461 FeS/SAM binding site; other site 744872003462 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 744872003463 ATP cone domain; Region: ATP-cone; pfam03477 744872003464 Class III ribonucleotide reductase; Region: RNR_III; cd01675 744872003465 effector binding site; other site 744872003466 active site 744872003467 Zn binding site [ion binding]; other site 744872003468 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 744872003469 ATP cone domain; Region: ATP-cone; pfam03477 744872003470 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 744872003471 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 744872003472 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 744872003473 Found in ATP-dependent protease La (LON); Region: LON; smart00464 744872003474 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 744872003475 Walker A motif; other site 744872003476 ATP binding site [chemical binding]; other site 744872003477 Walker B motif; other site 744872003478 arginine finger; other site 744872003479 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 744872003480 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 744872003481 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 744872003482 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 744872003483 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 744872003484 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 744872003485 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 744872003486 oligomer interface [polypeptide binding]; other site 744872003487 active site residues [active] 744872003488 trigger factor; Provisional; Region: tig; PRK01490 744872003489 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 744872003490 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 744872003491 FlgN protein; Region: FlgN; pfam05130 744872003492 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06665 744872003493 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 744872003494 flagellar hook-associated protein FlgL; Validated; Region: PRK06663 744872003495 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 744872003496 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 744872003497 flagellar assembly protein FliW; Provisional; Region: PRK13285 744872003498 RNA-binding global regulator CsrA [Signal transduction mechanisms]; Region: CsrA; COG1551 744872003499 PAS domain; Region: PAS_9; pfam13426 744872003500 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872003501 Zn2+ binding site [ion binding]; other site 744872003502 Mg2+ binding site [ion binding]; other site 744872003503 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 744872003504 Glycoprotease family; Region: Peptidase_M22; pfam00814 744872003505 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 744872003506 PilZ domain; Region: PilZ; pfam07238 744872003507 flagellar hook-associated protein FliD; Validated; Region: fliD; PRK06664 744872003508 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 744872003509 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 744872003510 FlaG protein; Region: FlaG; pfam03646 744872003511 flagellin; Provisional; Region: PRK12804 744872003512 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 744872003513 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 744872003514 flagellin; Provisional; Region: PRK12804 744872003515 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 744872003516 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 744872003517 recombination factor protein RarA/unknown domain fusion protein; Reviewed; Region: PRK13341 744872003518 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 744872003519 Walker A motif; other site 744872003520 ATP binding site [chemical binding]; other site 744872003521 Walker B motif; other site 744872003522 arginine finger; other site 744872003523 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 744872003524 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 744872003525 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 744872003526 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 744872003527 homodimer interface [polypeptide binding]; other site 744872003528 NADP binding site [chemical binding]; other site 744872003529 substrate binding site [chemical binding]; other site 744872003530 putative GTP cyclohydrolase; Provisional; Region: PRK13674 744872003531 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14335 744872003532 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 744872003533 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 744872003534 FeS/SAM binding site; other site 744872003535 TRAM domain; Region: TRAM; cl01282 744872003536 Sporulation related domain; Region: SPOR; pfam05036 744872003537 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 744872003538 DHH family; Region: DHH; pfam01368 744872003539 DHHA1 domain; Region: DHHA1; pfam02272 744872003540 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 744872003541 metal ion-dependent adhesion site (MIDAS); other site 744872003542 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085 744872003543 pyruvate phosphate dikinase; Provisional; Region: PRK09279 744872003544 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 744872003545 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 744872003546 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 744872003547 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872003548 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 744872003549 binding surface 744872003550 TPR motif; other site 744872003551 TPR repeat; Region: TPR_11; pfam13414 744872003552 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 744872003553 binding surface 744872003554 TPR motif; other site 744872003555 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 744872003556 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 744872003557 TPR motif; other site 744872003558 binding surface 744872003559 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 744872003560 arogenate dehydrogenase; Region: PLN02256 744872003561 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 744872003562 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 744872003563 TPR motif; other site 744872003564 binding surface 744872003565 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 744872003566 TPR motif; other site 744872003567 binding surface 744872003568 TPR repeat; Region: TPR_11; pfam13414 744872003569 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 744872003570 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 744872003571 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 744872003572 FeS/SAM binding site; other site 744872003573 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 744872003574 putative ADP-ribose binding site [chemical binding]; other site 744872003575 putative active site [active] 744872003576 Uncharacterized conserved protein [Function unknown]; Region: COG1872 744872003577 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 744872003578 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 744872003579 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 744872003580 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 744872003581 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 744872003582 GTPase RsgA; Reviewed; Region: PRK00098 744872003583 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 744872003584 RNA binding site [nucleotide binding]; other site 744872003585 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 744872003586 GTPase/Zn-binding domain interface [polypeptide binding]; other site 744872003587 GTP/Mg2+ binding site [chemical binding]; other site 744872003588 G4 box; other site 744872003589 G5 box; other site 744872003590 G1 box; other site 744872003591 Switch I region; other site 744872003592 G2 box; other site 744872003593 G3 box; other site 744872003594 Switch II region; other site 744872003595 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 744872003596 MutS domain III; Region: MutS_III; pfam05192 744872003597 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872003598 Walker A/P-loop; other site 744872003599 ATP binding site [chemical binding]; other site 744872003600 Q-loop/lid; other site 744872003601 ABC transporter signature motif; other site 744872003602 Walker B; other site 744872003603 D-loop; other site 744872003604 H-loop/switch region; other site 744872003605 Smr domain; Region: Smr; pfam01713 744872003606 TM2 domain; Region: TM2; cl00984 744872003607 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 744872003608 Protein of unknown function (DUF342); Region: DUF342; pfam03961 744872003609 Arginine repressor [Transcription]; Region: ArgR; COG1438 744872003610 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 744872003611 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 744872003612 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 744872003613 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 744872003614 active site 744872003615 dimer interface [polypeptide binding]; other site 744872003616 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 744872003617 dimer interface [polypeptide binding]; other site 744872003618 active site 744872003619 Cache domain; Region: Cache_1; pfam02743 744872003620 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 744872003621 dimerization interface [polypeptide binding]; other site 744872003622 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872003623 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872003624 dimer interface [polypeptide binding]; other site 744872003625 putative CheW interface [polypeptide binding]; other site 744872003626 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 744872003627 metal binding site [ion binding]; metal-binding site 744872003628 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 744872003629 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 744872003630 dimerization interface [polypeptide binding]; other site 744872003631 domain crossover interface; other site 744872003632 redox-dependent activation switch; other site 744872003633 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 744872003634 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 744872003635 putative active site [active] 744872003636 putative metal binding site [ion binding]; other site 744872003637 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 744872003638 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 744872003639 binding surface 744872003640 TPR motif; other site 744872003641 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 744872003642 TPR motif; other site 744872003643 binding surface 744872003644 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 744872003645 binding surface 744872003646 TPR motif; other site 744872003647 Restriction endonuclease; Region: Mrr_cat; pfam04471 744872003648 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 744872003649 binding surface 744872003650 TPR motif; other site 744872003651 Tetratricopeptide repeat; Region: TPR_12; pfam13424 744872003652 TPR repeat; Region: TPR_11; pfam13414 744872003653 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 744872003654 binding surface 744872003655 TPR motif; other site 744872003656 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 744872003657 TPR motif; other site 744872003658 binding surface 744872003659 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 744872003660 binding surface 744872003661 TPR repeat; Region: TPR_11; pfam13414 744872003662 TPR motif; other site 744872003663 TPR repeat; Region: TPR_11; pfam13414 744872003664 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 744872003665 binding surface 744872003666 TPR motif; other site 744872003667 TPR repeat; Region: TPR_11; pfam13414 744872003668 TPR repeat; Region: TPR_11; pfam13414 744872003669 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 744872003670 binding surface 744872003671 TPR motif; other site 744872003672 Tetratricopeptide repeat; Region: TPR_12; pfam13424 744872003673 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 744872003674 binding surface 744872003675 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872003676 TPR motif; other site 744872003677 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 744872003678 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 744872003679 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 744872003680 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 744872003681 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 744872003682 minor groove reading motif; other site 744872003683 helix-hairpin-helix signature motif; other site 744872003684 substrate binding pocket [chemical binding]; other site 744872003685 active site 744872003686 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 744872003687 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 744872003688 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 744872003689 HIGH motif; other site 744872003690 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 744872003691 active site 744872003692 KMSKS motif; other site 744872003693 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 744872003694 tRNA binding surface [nucleotide binding]; other site 744872003695 anticodon binding site; other site 744872003696 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 744872003697 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 744872003698 Double zinc ribbon; Region: DZR; pfam12773 744872003699 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 744872003700 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 744872003701 FeS/SAM binding site; other site 744872003702 methionine sulfoxide reductase A; Provisional; Region: PRK14054 744872003703 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 744872003704 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 744872003705 putative NADH binding site [chemical binding]; other site 744872003706 putative active site [active] 744872003707 nudix motif; other site 744872003708 putative metal binding site [ion binding]; other site 744872003709 fumarate hydratase; Provisional; Region: PRK15389 744872003710 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 744872003711 Fumarase C-terminus; Region: Fumerase_C; pfam05683 744872003712 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872003713 AAA domain; Region: AAA_22; pfam13401 744872003714 Walker A/P-loop; other site 744872003715 ATP binding site [chemical binding]; other site 744872003716 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872003717 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 744872003718 dimer interface [polypeptide binding]; other site 744872003719 phosphorylation site [posttranslational modification] 744872003720 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872003721 ATP binding site [chemical binding]; other site 744872003722 Mg2+ binding site [ion binding]; other site 744872003723 G-X-G motif; other site 744872003724 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 744872003725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872003726 active site 744872003727 phosphorylation site [posttranslational modification] 744872003728 intermolecular recognition site; other site 744872003729 dimerization interface [polypeptide binding]; other site 744872003730 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 744872003731 Walker A motif; other site 744872003732 ATP binding site [chemical binding]; other site 744872003733 Walker B motif; other site 744872003734 arginine finger; other site 744872003735 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 744872003736 HflC protein; Region: hflC; TIGR01932 744872003737 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 744872003738 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 744872003739 HflK protein; Region: hflK; TIGR01933 744872003740 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 744872003741 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 744872003742 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 744872003743 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 744872003744 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 744872003745 TPP-binding site; other site 744872003746 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 744872003747 PYR/PP interface [polypeptide binding]; other site 744872003748 dimer interface [polypeptide binding]; other site 744872003749 TPP binding site [chemical binding]; other site 744872003750 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 744872003751 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 744872003752 dihydropteroate synthase; Region: DHPS; TIGR01496 744872003753 substrate binding pocket [chemical binding]; other site 744872003754 dimer interface [polypeptide binding]; other site 744872003755 inhibitor binding site; inhibition site 744872003756 Uncharacterized conserved protein [Function unknown]; Region: COG1624 744872003757 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 744872003758 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 744872003759 YbbR-like protein; Region: YbbR; pfam07949 744872003760 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 744872003761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 744872003762 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 744872003763 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 744872003764 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 744872003765 dimerization interface 3.5A [polypeptide binding]; other site 744872003766 active site 744872003767 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 744872003768 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 744872003769 cobalamin binding residues [chemical binding]; other site 744872003770 putative BtuC binding residues; other site 744872003771 dimer interface [polypeptide binding]; other site 744872003772 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 744872003773 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 744872003774 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 744872003775 ABC-ATPase subunit interface; other site 744872003776 dimer interface [polypeptide binding]; other site 744872003777 putative PBP binding regions; other site 744872003778 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 744872003779 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 744872003780 Walker A/P-loop; other site 744872003781 ATP binding site [chemical binding]; other site 744872003782 Q-loop/lid; other site 744872003783 ABC transporter signature motif; other site 744872003784 Walker B; other site 744872003785 D-loop; other site 744872003786 H-loop/switch region; other site 744872003787 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 744872003788 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 744872003789 homodimer interface [polypeptide binding]; other site 744872003790 substrate-cofactor binding pocket; other site 744872003791 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872003792 catalytic residue [active] 744872003793 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 744872003794 homodimer interface [polypeptide binding]; other site 744872003795 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872003796 catalytic residue [active] 744872003797 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 744872003798 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 744872003799 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 744872003800 Domain of unknown function DUF21; Region: DUF21; pfam01595 744872003801 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 744872003802 Transporter associated domain; Region: CorC_HlyC; smart01091 744872003803 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 744872003804 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872003805 Zn2+ binding site [ion binding]; other site 744872003806 Mg2+ binding site [ion binding]; other site 744872003807 aminotransferase AlaT; Validated; Region: PRK09265 744872003808 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 744872003809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872003810 homodimer interface [polypeptide binding]; other site 744872003811 catalytic residue [active] 744872003812 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 744872003813 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 744872003814 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 744872003815 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 744872003816 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 744872003817 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 744872003818 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 744872003819 Catalytic site [active] 744872003820 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 744872003821 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 744872003822 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 744872003823 Peptidase family M23; Region: Peptidase_M23; pfam01551 744872003824 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 744872003825 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 744872003826 putative active site [active] 744872003827 PhoH-like protein; Region: PhoH; pfam02562 744872003828 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 744872003829 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 744872003830 NodB motif; other site 744872003831 active site 744872003832 catalytic site [active] 744872003833 metal binding site [ion binding]; metal-binding site 744872003834 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 744872003835 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 744872003836 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 744872003837 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 744872003838 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 744872003839 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 744872003840 PhoH-like protein; Region: PhoH; pfam02562 744872003841 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 744872003842 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 744872003843 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872003844 Zn2+ binding site [ion binding]; other site 744872003845 Mg2+ binding site [ion binding]; other site 744872003846 metal-binding heat shock protein; Provisional; Region: PRK00016 744872003847 FOG: CBS domain [General function prediction only]; Region: COG0517 744872003848 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 744872003849 Transporter associated domain; Region: CorC_HlyC; smart01091 744872003850 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 744872003851 binding surface 744872003852 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872003853 TPR motif; other site 744872003854 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 744872003855 binding surface 744872003856 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872003857 TPR motif; other site 744872003858 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 744872003859 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 744872003860 peptide chain release factor 2; Validated; Region: prfB; PRK00578 744872003861 PCRF domain; Region: PCRF; pfam03462 744872003862 RF-1 domain; Region: RF-1; pfam00472 744872003863 PEGA domain; Region: PEGA; pfam08308 744872003864 PEGA domain; Region: PEGA; pfam08308 744872003865 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 744872003866 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 744872003867 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 744872003868 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 744872003869 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 744872003870 FtsX-like permease family; Region: FtsX; pfam02687 744872003871 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 744872003872 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 744872003873 Walker A/P-loop; other site 744872003874 ATP binding site [chemical binding]; other site 744872003875 Q-loop/lid; other site 744872003876 ABC transporter signature motif; other site 744872003877 Walker B; other site 744872003878 D-loop; other site 744872003879 H-loop/switch region; other site 744872003880 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 744872003881 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 744872003882 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 744872003883 UvrB/uvrC motif; Region: UVR; pfam02151 744872003884 Arginine kinase [Amino acid transport and metabolism]; Region: COG3869 744872003885 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 744872003886 ADP binding site [chemical binding]; other site 744872003887 phosphagen binding site; other site 744872003888 substrate specificity loop; other site 744872003889 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 744872003890 Clp amino terminal domain; Region: Clp_N; pfam02861 744872003891 Clp amino terminal domain; Region: Clp_N; pfam02861 744872003892 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 744872003893 Walker A motif; other site 744872003894 ATP binding site [chemical binding]; other site 744872003895 Walker B motif; other site 744872003896 arginine finger; other site 744872003897 UvrB/uvrC motif; Region: UVR; pfam02151 744872003898 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 744872003899 Walker A motif; other site 744872003900 ATP binding site [chemical binding]; other site 744872003901 Walker B motif; other site 744872003902 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 744872003903 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 744872003904 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 744872003905 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 744872003906 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 744872003907 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 744872003908 catalytic residue [active] 744872003909 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 744872003910 catalytic residues [active] 744872003911 dimer interface [polypeptide binding]; other site 744872003912 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 744872003913 MarR family; Region: MarR; pfam01047 744872003914 MarR family; Region: MarR_2; cl17246 744872003915 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 744872003916 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 744872003917 ligand binding site; other site 744872003918 oligomer interface; other site 744872003919 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 744872003920 dimer interface [polypeptide binding]; other site 744872003921 N-terminal domain interface [polypeptide binding]; other site 744872003922 sulfate 1 binding site; other site 744872003923 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 744872003924 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 744872003925 ATP binding site [chemical binding]; other site 744872003926 putative Mg++ binding site [ion binding]; other site 744872003927 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 744872003928 nucleotide binding region [chemical binding]; other site 744872003929 ATP-binding site [chemical binding]; other site 744872003930 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 744872003931 RNase_H superfamily; Region: RNase_H_2; pfam13482 744872003932 active site 744872003933 catalytic site [active] 744872003934 substrate binding site [chemical binding]; other site 744872003935 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 744872003936 Part of AAA domain; Region: AAA_19; pfam13245 744872003937 Family description; Region: UvrD_C_2; pfam13538 744872003938 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 744872003939 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 744872003940 transmembrane helices; other site 744872003941 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 744872003942 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 744872003943 active site 744872003944 dimerization interface [polypeptide binding]; other site 744872003945 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 744872003946 Radical SAM superfamily; Region: Radical_SAM; pfam04055 744872003947 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 744872003948 DEAD-like helicases superfamily; Region: DEXDc; smart00487 744872003949 ATP binding site [chemical binding]; other site 744872003950 putative Mg++ binding site [ion binding]; other site 744872003951 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 744872003952 nucleotide binding region [chemical binding]; other site 744872003953 ATP-binding site [chemical binding]; other site 744872003954 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 744872003955 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 744872003956 putative ADP-binding pocket [chemical binding]; other site 744872003957 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 744872003958 Na binding site [ion binding]; other site 744872003959 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 744872003960 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 744872003961 dimer interface [polypeptide binding]; other site 744872003962 PYR/PP interface [polypeptide binding]; other site 744872003963 TPP binding site [chemical binding]; other site 744872003964 substrate binding site [chemical binding]; other site 744872003965 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 744872003966 TPP-binding site; other site 744872003967 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 744872003968 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 744872003969 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 744872003970 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 744872003971 acyl-activating enzyme (AAE) consensus motif; other site 744872003972 AMP binding site [chemical binding]; other site 744872003973 active site 744872003974 CoA binding site [chemical binding]; other site 744872003975 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 744872003976 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 744872003977 acyl-activating enzyme (AAE) consensus motif; other site 744872003978 AMP binding site [chemical binding]; other site 744872003979 active site 744872003980 CoA binding site [chemical binding]; other site 744872003981 ACT domain-containing protein [General function prediction only]; Region: COG4747 744872003982 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 744872003983 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 744872003984 glycogen synthase; Provisional; Region: glgA; PRK00654 744872003985 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 744872003986 ADP-binding pocket [chemical binding]; other site 744872003987 homodimer interface [polypeptide binding]; other site 744872003988 Borrelia P83/100 protein; Region: Borrelia_P83; pfam05262 744872003989 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 744872003990 PQQ-like domain; Region: PQQ_2; pfam13360 744872003991 Trp docking motif [polypeptide binding]; other site 744872003992 active site 744872003993 HEAT repeats; Region: HEAT_2; pfam13646 744872003994 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 744872003995 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 744872003996 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 744872003997 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 744872003998 active site 744872003999 NTP binding site [chemical binding]; other site 744872004000 metal binding triad [ion binding]; metal-binding site 744872004001 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 744872004002 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 744872004003 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 744872004004 binding surface 744872004005 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872004006 TPR motif; other site 744872004007 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 744872004008 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 744872004009 RNA binding surface [nucleotide binding]; other site 744872004010 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 744872004011 active site 744872004012 Divergent PAP2 family; Region: DUF212; pfam02681 744872004013 sodium/hydrogen exchanger 3; Region: b_cpa1; TIGR00840 744872004014 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 744872004015 SLBB domain; Region: SLBB; pfam10531 744872004016 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 744872004017 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 744872004018 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 744872004019 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 744872004020 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 744872004021 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 744872004022 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 744872004023 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 744872004024 active site 744872004025 HIGH motif; other site 744872004026 KMSKS motif; other site 744872004027 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 744872004028 tRNA binding surface [nucleotide binding]; other site 744872004029 anticodon binding site; other site 744872004030 Putative tRNA binding domain; Region: tRNA_bind; pfam01588 744872004031 putative tRNA-binding site [nucleotide binding]; other site 744872004032 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 744872004033 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 744872004034 ribonuclease Z; Region: RNase_Z; TIGR02651 744872004035 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 744872004036 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 744872004037 Walker A/P-loop; other site 744872004038 ATP binding site [chemical binding]; other site 744872004039 Q-loop/lid; other site 744872004040 ABC transporter signature motif; other site 744872004041 Walker B; other site 744872004042 D-loop; other site 744872004043 H-loop/switch region; other site 744872004044 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 744872004045 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 744872004046 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 744872004047 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872004048 metal binding site [ion binding]; metal-binding site 744872004049 active site 744872004050 I-site; other site 744872004051 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 744872004052 putative ligand binding pocket/active site [active] 744872004053 putative metal binding site [ion binding]; other site 744872004054 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 744872004055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 744872004056 Septum formation initiator; Region: DivIC; cl17659 744872004057 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 744872004058 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 744872004059 SmpB-tmRNA interface; other site 744872004060 PEGA domain; Region: PEGA; pfam08308 744872004061 Uncharacterized conserved protein [Function unknown]; Region: COG1262 744872004062 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 744872004063 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 744872004064 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 744872004065 Catalytic site [active] 744872004066 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 744872004067 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 744872004068 Catalytic site [active] 744872004069 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 744872004070 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 744872004071 HemN C-terminal domain; Region: HemN_C; pfam06969 744872004072 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 744872004073 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 744872004074 ATP binding site [chemical binding]; other site 744872004075 putative Mg++ binding site [ion binding]; other site 744872004076 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 744872004077 nucleotide binding region [chemical binding]; other site 744872004078 ATP-binding site [chemical binding]; other site 744872004079 Helicase associated domain (HA2); Region: HA2; pfam04408 744872004080 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 744872004081 pyruvate phosphate dikinase; Provisional; Region: PRK09279 744872004082 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 744872004083 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 744872004084 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 744872004085 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 744872004086 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 744872004087 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 744872004088 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872004089 dimer interface [polypeptide binding]; other site 744872004090 conserved gate region; other site 744872004091 putative PBP binding loops; other site 744872004092 ABC-ATPase subunit interface; other site 744872004093 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 744872004094 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 744872004095 Walker A/P-loop; other site 744872004096 ATP binding site [chemical binding]; other site 744872004097 Q-loop/lid; other site 744872004098 ABC transporter signature motif; other site 744872004099 Walker B; other site 744872004100 D-loop; other site 744872004101 H-loop/switch region; other site 744872004102 Cobalt transport protein; Region: CbiQ; cl00463 744872004103 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 744872004104 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 744872004105 Walker A/P-loop; other site 744872004106 ATP binding site [chemical binding]; other site 744872004107 Q-loop/lid; other site 744872004108 ABC transporter signature motif; other site 744872004109 Walker B; other site 744872004110 D-loop; other site 744872004111 H-loop/switch region; other site 744872004112 BioY family; Region: BioY; pfam02632 744872004113 Biotin operon repressor [Transcription]; Region: BirA; COG1654 744872004114 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 744872004115 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 744872004116 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 744872004117 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 744872004118 putative active site [active] 744872004119 catalytic triad [active] 744872004120 putative dimer interface [polypeptide binding]; other site 744872004121 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 744872004122 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 744872004123 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 744872004124 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 744872004125 binding surface 744872004126 Tetratricopeptide repeat; Region: TPR_12; pfam13424 744872004127 TPR motif; other site 744872004128 TPR repeat; Region: TPR_11; pfam13414 744872004129 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 744872004130 binding surface 744872004131 TPR motif; other site 744872004132 TPR repeat; Region: TPR_11; pfam13414 744872004133 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 744872004134 TPR motif; other site 744872004135 Uncharacterized conserved protein [Function unknown]; Region: COG3391 744872004136 von Willebrand factor type A domain; Region: VWA_2; pfam13519 744872004137 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 744872004138 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 744872004139 catalytic residues [active] 744872004140 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 744872004141 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 744872004142 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 744872004143 Ligand Binding Site [chemical binding]; other site 744872004144 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 744872004145 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 744872004146 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 744872004147 catalytic residue [active] 744872004148 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 744872004149 dimerization interface [polypeptide binding]; other site 744872004150 putative DNA binding site [nucleotide binding]; other site 744872004151 putative Zn2+ binding site [ion binding]; other site 744872004152 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 744872004153 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 744872004154 putative catalytic residues [active] 744872004155 nucleotide binding site [chemical binding]; other site 744872004156 aspartate binding site [chemical binding]; other site 744872004157 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 744872004158 dimer interface [polypeptide binding]; other site 744872004159 putative threonine allosteric regulatory site; other site 744872004160 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 744872004161 putative threonine allosteric regulatory site; other site 744872004162 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 744872004163 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 744872004164 aspartate aminotransferase; Provisional; Region: PRK06836 744872004165 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 744872004166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872004167 homodimer interface [polypeptide binding]; other site 744872004168 catalytic residue [active] 744872004169 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 744872004170 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 744872004171 Mg++ binding site [ion binding]; other site 744872004172 putative catalytic motif [active] 744872004173 substrate binding site [chemical binding]; other site 744872004174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 744872004175 Transposase; Region: HTH_Tnp_1; cl17663 744872004176 putative transposase OrfB; Reviewed; Region: PHA02517 744872004177 HTH-like domain; Region: HTH_21; pfam13276 744872004178 Integrase core domain; Region: rve; pfam00665 744872004179 Integrase core domain; Region: rve_3; pfam13683 744872004180 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 744872004181 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 744872004182 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 744872004183 NADP binding site [chemical binding]; other site 744872004184 active site 744872004185 putative substrate binding site [chemical binding]; other site 744872004186 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 744872004187 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 744872004188 NAD binding site [chemical binding]; other site 744872004189 substrate binding site [chemical binding]; other site 744872004190 homodimer interface [polypeptide binding]; other site 744872004191 active site 744872004192 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 744872004193 active site 744872004194 NTP binding site [chemical binding]; other site 744872004195 metal binding triad [ion binding]; metal-binding site 744872004196 antibiotic binding site [chemical binding]; other site 744872004197 cytidylyltransferase; Region: cytidylyltransferase; cd02170 744872004198 active site 744872004199 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 744872004200 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 744872004201 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 744872004202 tetramer interface [polypeptide binding]; other site 744872004203 active site 744872004204 Mg2+/Mn2+ binding site [ion binding]; other site 744872004205 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 744872004206 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 744872004207 PYR/PP interface [polypeptide binding]; other site 744872004208 dimer interface [polypeptide binding]; other site 744872004209 TPP binding site [chemical binding]; other site 744872004210 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 744872004211 TPP-binding site; other site 744872004212 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 744872004213 active site 744872004214 metal-binding site 744872004215 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 744872004216 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 744872004217 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 744872004218 catalytic residue [active] 744872004219 histidyl-tRNA synthetase; Region: hisS; TIGR00442 744872004220 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 744872004221 dimer interface [polypeptide binding]; other site 744872004222 motif 1; other site 744872004223 active site 744872004224 motif 2; other site 744872004225 motif 3; other site 744872004226 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 744872004227 anticodon binding site; other site 744872004228 Type III pantothenate kinase; Region: Pan_kinase; cl17198 744872004229 NeuB family; Region: NeuB; pfam03102 744872004230 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 744872004231 NeuB binding interface [polypeptide binding]; other site 744872004232 putative substrate binding site [chemical binding]; other site 744872004233 hypothetical protein; Validated; Region: PRK00110 744872004234 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 744872004235 active site 744872004236 putative DNA-binding cleft [nucleotide binding]; other site 744872004237 dimer interface [polypeptide binding]; other site 744872004238 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 744872004239 RuvA N terminal domain; Region: RuvA_N; pfam01330 744872004240 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 744872004241 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 744872004242 Walker A motif; other site 744872004243 ATP binding site [chemical binding]; other site 744872004244 Walker B motif; other site 744872004245 arginine finger; other site 744872004246 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 744872004247 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 744872004248 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 744872004249 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 744872004250 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 744872004251 TMP-binding site; other site 744872004252 ATP-binding site [chemical binding]; other site 744872004253 Family of unknown function (DUF490); Region: DUF490; pfam04357 744872004254 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 744872004255 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 744872004256 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 744872004257 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 744872004258 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 744872004259 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 744872004260 Surface antigen; Region: Bac_surface_Ag; pfam01103 744872004261 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 744872004262 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 744872004263 anti sigma factor interaction site; other site 744872004264 regulatory phosphorylation site [posttranslational modification]; other site 744872004265 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 744872004266 MutS domain I; Region: MutS_I; pfam01624 744872004267 MutS domain II; Region: MutS_II; pfam05188 744872004268 MutS domain III; Region: MutS_III; pfam05192 744872004269 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 744872004270 Walker A/P-loop; other site 744872004271 ATP binding site [chemical binding]; other site 744872004272 Q-loop/lid; other site 744872004273 ABC transporter signature motif; other site 744872004274 Walker B; other site 744872004275 D-loop; other site 744872004276 H-loop/switch region; other site 744872004277 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 744872004278 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 744872004279 active site 744872004280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 744872004281 Sm and related proteins; Region: Sm_like; cl00259 744872004282 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 744872004283 putative oligomer interface [polypeptide binding]; other site 744872004284 putative RNA binding site [nucleotide binding]; other site 744872004285 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 744872004286 NusA N-terminal domain; Region: NusA_N; pfam08529 744872004287 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 744872004288 RNA binding site [nucleotide binding]; other site 744872004289 homodimer interface [polypeptide binding]; other site 744872004290 NusA-like KH domain; Region: KH_5; pfam13184 744872004291 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 744872004292 G-X-X-G motif; other site 744872004293 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 744872004294 translation initiation factor IF-2; Region: IF-2; TIGR00487 744872004295 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 744872004296 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 744872004297 G1 box; other site 744872004298 putative GEF interaction site [polypeptide binding]; other site 744872004299 GTP/Mg2+ binding site [chemical binding]; other site 744872004300 Switch I region; other site 744872004301 G2 box; other site 744872004302 G3 box; other site 744872004303 Switch II region; other site 744872004304 G4 box; other site 744872004305 G5 box; other site 744872004306 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 744872004307 Translation-initiation factor 2; Region: IF-2; pfam11987 744872004308 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 744872004309 Ribosome-binding factor A; Region: RBFA; pfam02033 744872004310 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 744872004311 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 744872004312 RNA binding site [nucleotide binding]; other site 744872004313 active site 744872004314 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 744872004315 16S/18S rRNA binding site [nucleotide binding]; other site 744872004316 S13e-L30e interaction site [polypeptide binding]; other site 744872004317 25S rRNA binding site [nucleotide binding]; other site 744872004318 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 744872004319 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 744872004320 RNase E interface [polypeptide binding]; other site 744872004321 trimer interface [polypeptide binding]; other site 744872004322 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 744872004323 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 744872004324 RNase E interface [polypeptide binding]; other site 744872004325 trimer interface [polypeptide binding]; other site 744872004326 active site 744872004327 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 744872004328 putative nucleic acid binding region [nucleotide binding]; other site 744872004329 G-X-X-G motif; other site 744872004330 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 744872004331 RNA binding site [nucleotide binding]; other site 744872004332 domain interface; other site 744872004333 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 744872004334 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 744872004335 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 744872004336 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 744872004337 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 744872004338 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 744872004339 Predicted permeases [General function prediction only]; Region: COG0795 744872004340 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 744872004341 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 744872004342 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 744872004343 HEAT repeats; Region: HEAT_2; pfam13646 744872004344 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 744872004345 metal ion-dependent adhesion site (MIDAS); other site 744872004346 transcript cleavage factor/unknown domain fusion protein; Provisional; Region: PRK14720 744872004347 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 744872004348 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 744872004349 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 744872004350 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 744872004351 substrate binding site [chemical binding]; other site 744872004352 hexamer interface [polypeptide binding]; other site 744872004353 metal binding site [ion binding]; metal-binding site 744872004354 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 744872004355 binding surface 744872004356 TPR motif; other site 744872004357 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872004358 ADP_ribosylating enzymes catalyze the transfer of ADP_ribose from NAD+ to substrates. Bacterial toxins are cytoplasmic and catalyze the transfer of a single ADP_ribose unit to eukaryotic elongation factor 2, halting protein synthesis and killing the cell; Region: ADP_ribosyl; cl00283 744872004359 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 744872004360 binding surface 744872004361 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872004362 TPR motif; other site 744872004363 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 744872004364 putative active site [active] 744872004365 dimerization interface [polypeptide binding]; other site 744872004366 putative tRNAtyr binding site [nucleotide binding]; other site 744872004367 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 744872004368 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 744872004369 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 744872004370 active site 744872004371 recombinase A; Provisional; Region: recA; PRK09354 744872004372 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 744872004373 hexamer interface [polypeptide binding]; other site 744872004374 Walker A motif; other site 744872004375 ATP binding site [chemical binding]; other site 744872004376 Walker B motif; other site 744872004377 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 744872004378 catalytic center binding site [active] 744872004379 ATP binding site [chemical binding]; other site 744872004380 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 744872004381 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 744872004382 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 744872004383 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 744872004384 RNA binding surface [nucleotide binding]; other site 744872004385 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 744872004386 active site 744872004387 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 744872004388 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 744872004389 CMP-binding site; other site 744872004390 The sites determining sugar specificity; other site 744872004391 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 744872004392 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 744872004393 RNA binding site [nucleotide binding]; other site 744872004394 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 744872004395 RNA binding site [nucleotide binding]; other site 744872004396 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 744872004397 RNA binding site [nucleotide binding]; other site 744872004398 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 744872004399 RNA binding site [nucleotide binding]; other site 744872004400 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 744872004401 RNA binding site [nucleotide binding]; other site 744872004402 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 744872004403 RNA binding site [nucleotide binding]; other site 744872004404 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 744872004405 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 744872004406 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 744872004407 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 744872004408 Walker A motif; other site 744872004409 ATP binding site [chemical binding]; other site 744872004410 Walker B motif; other site 744872004411 arginine finger; other site 744872004412 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 744872004413 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 744872004414 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872004415 binding surface 744872004416 TPR motif; other site 744872004417 CHASE2 domain; Region: CHASE2; cl01732 744872004418 CHASE2 domain; Region: CHASE2; pfam05226 744872004419 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 744872004420 cyclase homology domain; Region: CHD; cd07302 744872004421 nucleotidyl binding site; other site 744872004422 metal binding site [ion binding]; metal-binding site 744872004423 dimer interface [polypeptide binding]; other site 744872004424 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 744872004425 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 744872004426 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 744872004427 FeS/SAM binding site; other site 744872004428 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 744872004429 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 744872004430 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 744872004431 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 744872004432 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 744872004433 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 744872004434 rod shape-determining protein MreC; Provisional; Region: PRK13922 744872004435 rod shape-determining protein MreC; Region: MreC; pfam04085 744872004436 rod shape-determining protein MreB; Provisional; Region: PRK13927 744872004437 MreB and similar proteins; Region: MreB_like; cd10225 744872004438 nucleotide binding site [chemical binding]; other site 744872004439 Mg binding site [ion binding]; other site 744872004440 putative protofilament interaction site [polypeptide binding]; other site 744872004441 RodZ interaction site [polypeptide binding]; other site 744872004442 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 744872004443 TPR motif; other site 744872004444 binding surface 744872004445 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 744872004446 TPR motif; other site 744872004447 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 744872004448 Putative zinc ribbon domain; Region: DUF164; pfam02591 744872004449 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 744872004450 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 744872004451 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 744872004452 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 744872004453 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 744872004454 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 744872004455 DNA binding residues [nucleotide binding] 744872004456 DNA primase, catalytic core; Region: dnaG; TIGR01391 744872004457 CHC2 zinc finger; Region: zf-CHC2; pfam01807 744872004458 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 744872004459 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 744872004460 active site 744872004461 metal binding site [ion binding]; metal-binding site 744872004462 interdomain interaction site; other site 744872004463 YceG-like family; Region: YceG; pfam02618 744872004464 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 744872004465 dimerization interface [polypeptide binding]; other site 744872004466 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 744872004467 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 744872004468 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 744872004469 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 744872004470 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 744872004471 Laminin N-terminal (Domain VI); Region: Laminin_N; cl02806 744872004472 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 744872004473 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 744872004474 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 744872004475 homotrimer interaction site [polypeptide binding]; other site 744872004476 active site 744872004477 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 744872004478 nucleotide binding site/active site [active] 744872004479 HIT family signature motif; other site 744872004480 catalytic residue [active] 744872004481 Thiamine pyrophosphokinase; Region: TPK; cd07995 744872004482 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 744872004483 active site 744872004484 dimerization interface [polypeptide binding]; other site 744872004485 thiamine binding site [chemical binding]; other site 744872004486 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 744872004487 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 744872004488 active site 744872004489 NTP binding site [chemical binding]; other site 744872004490 metal binding triad [ion binding]; metal-binding site 744872004491 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 744872004492 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872004493 Zn2+ binding site [ion binding]; other site 744872004494 Mg2+ binding site [ion binding]; other site 744872004495 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 744872004496 ribonuclease III; Reviewed; Region: rnc; PRK00102 744872004497 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 744872004498 dimerization interface [polypeptide binding]; other site 744872004499 active site 744872004500 metal binding site [ion binding]; metal-binding site 744872004501 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 744872004502 acyl carrier protein; Provisional; Region: acpP; PRK00982 744872004503 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 744872004504 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 744872004505 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 744872004506 active site 744872004507 (T/H)XGH motif; other site 744872004508 HEAT repeats; Region: HEAT_2; pfam13646 744872004509 Protein of unknown function DUF72; Region: DUF72; pfam01904 744872004510 DNA polymerase IV; Validated; Region: PRK01810 744872004511 Y-family of DNA polymerases; Region: PolY; cl12025 744872004512 active site 744872004513 DNA binding site [nucleotide binding] 744872004514 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 744872004515 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 744872004516 active site 744872004517 PHP Thumb interface [polypeptide binding]; other site 744872004518 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 744872004519 generic binding surface I; other site 744872004520 generic binding surface II; other site 744872004521 Maf-like protein; Region: Maf; pfam02545 744872004522 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 744872004523 active site 744872004524 dimer interface [polypeptide binding]; other site 744872004525 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 744872004526 rRNA interaction site [nucleotide binding]; other site 744872004527 S8 interaction site; other site 744872004528 putative laminin-1 binding site; other site 744872004529 elongation factor Ts; Provisional; Region: tsf; PRK09377 744872004530 UBA/TS-N domain; Region: UBA; pfam00627 744872004531 Elongation factor TS; Region: EF_TS; pfam00889 744872004532 Elongation factor TS; Region: EF_TS; pfam00889 744872004533 ribosome recycling factor; Reviewed; Region: frr; PRK00083 744872004534 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 744872004535 hinge region; other site 744872004536 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 744872004537 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 744872004538 catalytic residue [active] 744872004539 putative FPP diphosphate binding site; other site 744872004540 putative FPP binding hydrophobic cleft; other site 744872004541 dimer interface [polypeptide binding]; other site 744872004542 putative IPP diphosphate binding site; other site 744872004543 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 744872004544 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 744872004545 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 744872004546 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 744872004547 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 744872004548 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 744872004549 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 744872004550 active site 744872004551 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 744872004552 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 744872004553 protein binding site [polypeptide binding]; other site 744872004554 CpXC protein; Region: CpXC; pfam14353 744872004555 Late competence development protein ComFB; Region: ComFB; pfam10719 744872004556 replicative DNA helicase; Region: DnaB; TIGR00665 744872004557 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 744872004558 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 744872004559 Walker A motif; other site 744872004560 ATP binding site [chemical binding]; other site 744872004561 Walker B motif; other site 744872004562 DNA binding loops [nucleotide binding] 744872004563 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 744872004564 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 744872004565 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 744872004566 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 744872004567 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 744872004568 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 744872004569 dimer interface [polypeptide binding]; other site 744872004570 ssDNA binding site [nucleotide binding]; other site 744872004571 tetramer (dimer of dimers) interface [polypeptide binding]; other site 744872004572 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 744872004573 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 744872004574 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 744872004575 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 744872004576 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 744872004577 S-adenosylmethionine binding site [chemical binding]; other site 744872004578 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 744872004579 binding surface 744872004580 TPR motif; other site 744872004581 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 744872004582 binding surface 744872004583 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872004584 TPR motif; other site 744872004585 Tetratricopeptide repeat; Region: TPR_12; pfam13424 744872004586 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 744872004587 binding surface 744872004588 TPR motif; other site 744872004589 TPR repeat; Region: TPR_11; pfam13414 744872004590 TPR repeat; Region: TPR_11; pfam13414 744872004591 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 744872004592 binding surface 744872004593 TPR motif; other site 744872004594 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 744872004595 binding surface 744872004596 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872004597 TPR motif; other site 744872004598 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872004599 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 744872004600 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 744872004601 FeS/SAM binding site; other site 744872004602 Protein of unknown function (DUF445); Region: DUF445; pfam04286 744872004603 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 744872004604 active site 744872004605 8-oxo-dGMP binding site [chemical binding]; other site 744872004606 nudix motif; other site 744872004607 metal binding site [ion binding]; metal-binding site 744872004608 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 744872004609 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 744872004610 putative substrate binding site [chemical binding]; other site 744872004611 putative ATP binding site [chemical binding]; other site 744872004612 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 744872004613 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 744872004614 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 744872004615 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 744872004616 nucleotide binding region [chemical binding]; other site 744872004617 SEC-C motif; Region: SEC-C; pfam02810 744872004618 Sporulation related domain; Region: SPOR; pfam05036 744872004619 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 744872004620 Transcription antiterminator [Transcription]; Region: NusG; COG0250 744872004621 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 744872004622 heterodimer interface [polypeptide binding]; other site 744872004623 homodimer interface [polypeptide binding]; other site 744872004624 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 744872004625 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 744872004626 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 744872004627 NAD(P) binding site [chemical binding]; other site 744872004628 homodimer interface [polypeptide binding]; other site 744872004629 substrate binding site [chemical binding]; other site 744872004630 active site 744872004631 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 744872004632 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 744872004633 inhibitor-cofactor binding pocket; inhibition site 744872004634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872004635 catalytic residue [active] 744872004636 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 744872004637 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 744872004638 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 744872004639 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 744872004640 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 744872004641 catalytic loop [active] 744872004642 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 744872004643 iron binding site [ion binding]; other site 744872004644 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 744872004645 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 744872004646 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 744872004647 active site 744872004648 dimer interface [polypeptide binding]; other site 744872004649 metal binding site [ion binding]; metal-binding site 744872004650 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 744872004651 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 744872004652 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 744872004653 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 744872004654 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 744872004655 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 744872004656 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872004657 Walker A/P-loop; other site 744872004658 ATP binding site [chemical binding]; other site 744872004659 Q-loop/lid; other site 744872004660 ABC transporter signature motif; other site 744872004661 Walker B; other site 744872004662 D-loop; other site 744872004663 H-loop/switch region; other site 744872004664 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 744872004665 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 744872004666 active site 744872004667 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 744872004668 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 744872004669 LicD family; Region: LicD; pfam04991 744872004670 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 744872004671 Transposase domain (DUF772); Region: DUF772; pfam05598 744872004672 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872004673 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 744872004674 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 744872004675 putative ADP-binding pocket [chemical binding]; other site 744872004676 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 744872004677 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 744872004678 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 744872004679 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 744872004680 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 744872004681 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 744872004682 putative NAD(P) binding site [chemical binding]; other site 744872004683 active site 744872004684 putative substrate binding site [chemical binding]; other site 744872004685 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 744872004686 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 744872004687 Bacterial sugar transferase; Region: Bac_transf; pfam02397 744872004688 Rod binding protein; Region: Rod-binding; pfam10135 744872004689 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12816 744872004690 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 744872004691 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 744872004692 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 744872004693 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 744872004694 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 744872004695 EamA-like transporter family; Region: EamA; pfam00892 744872004696 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 744872004697 EamA-like transporter family; Region: EamA; pfam00892 744872004698 Homoserine O-succinyltransferase; Region: HTS; pfam04204 744872004699 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 744872004700 proposed active site lysine [active] 744872004701 conserved cys residue [active] 744872004702 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 744872004703 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 744872004704 ATP binding site [chemical binding]; other site 744872004705 putative Mg++ binding site [ion binding]; other site 744872004706 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 744872004707 nucleotide binding region [chemical binding]; other site 744872004708 ATP-binding site [chemical binding]; other site 744872004709 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 744872004710 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 744872004711 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 744872004712 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 744872004713 nucleotide binding pocket [chemical binding]; other site 744872004714 K-X-D-G motif; other site 744872004715 catalytic site [active] 744872004716 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 744872004717 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 744872004718 Dimer interface [polypeptide binding]; other site 744872004719 BRCT sequence motif; other site 744872004720 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 744872004721 S-adenosylmethionine binding site [chemical binding]; other site 744872004722 photolyase PhrII; Region: phr2; TIGR00591 744872004723 DNA photolyase; Region: DNA_photolyase; pfam00875 744872004724 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 744872004725 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 744872004726 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 744872004727 Protein of unknown function (DUF503); Region: DUF503; pfam04456 744872004728 FecR protein; Region: FecR; pfam04773 744872004729 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 744872004730 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 744872004731 binding surface 744872004732 TPR motif; other site 744872004733 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 744872004734 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 744872004735 TPR motif; other site 744872004736 binding surface 744872004737 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 744872004738 active site 744872004739 GcpE protein; Region: GcpE; pfam04551 744872004740 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 744872004741 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 744872004742 V-type ATP synthase subunit K; Validated; Region: PRK06649 744872004743 ATP synthase subunit C; Region: ATP-synt_C; cl00466 744872004744 V-type ATP synthase subunit I; Validated; Region: PRK05771 744872004745 V-type ATP synthase subunit D; Provisional; Region: PRK02195 744872004746 V-type ATP synthase subunit B; Provisional; Region: PRK02118 744872004747 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 744872004748 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 744872004749 Walker A motif homologous position; other site 744872004750 Walker B motif; other site 744872004751 V-type ATP synthase subunit A; Provisional; Region: PRK04192 744872004752 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 744872004753 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 744872004754 Walker A motif/ATP binding site; other site 744872004755 Walker B motif; other site 744872004756 V-type ATP synthase subunit E; Provisional; Region: PRK01558 744872004757 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 744872004758 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 744872004759 active site 744872004760 catalytic residues [active] 744872004761 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 744872004762 HSP70 interaction site [polypeptide binding]; other site 744872004763 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 744872004764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872004765 active site 744872004766 phosphorylation site [posttranslational modification] 744872004767 intermolecular recognition site; other site 744872004768 dimerization interface [polypeptide binding]; other site 744872004769 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 744872004770 Walker A motif; other site 744872004771 ATP binding site [chemical binding]; other site 744872004772 Walker B motif; other site 744872004773 arginine finger; other site 744872004774 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 744872004775 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 744872004776 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 744872004777 putative active site [active] 744872004778 heme pocket [chemical binding]; other site 744872004779 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 744872004780 dimer interface [polypeptide binding]; other site 744872004781 phosphorylation site [posttranslational modification] 744872004782 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872004783 ATP binding site [chemical binding]; other site 744872004784 G-X-G motif; other site 744872004785 DNA polymerase III subunit delta'; Validated; Region: PRK05818 744872004786 DNA polymerase III subunit delta'; Validated; Region: PRK08485 744872004787 Colicin V production protein; Region: Colicin_V; pfam02674 744872004788 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 744872004789 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 744872004790 active site 744872004791 homodimer interface [polypeptide binding]; other site 744872004792 TIR domain; Region: TIR_2; cl17458 744872004793 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 744872004794 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 744872004795 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 744872004796 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 744872004797 cyclase homology domain; Region: CHD; cd07302 744872004798 nucleotidyl binding site; other site 744872004799 metal binding site [ion binding]; metal-binding site 744872004800 dimer interface [polypeptide binding]; other site 744872004801 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 744872004802 Protein of unknown function (DUF342); Region: DUF342; pfam03961 744872004803 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 744872004804 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 744872004805 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 744872004806 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 744872004807 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 744872004808 DNA binding residues [nucleotide binding] 744872004809 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 744872004810 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 744872004811 P-loop; other site 744872004812 flagellar biosynthesis regulator FlhF; Provisional; Region: PRK12723 744872004813 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 744872004814 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 744872004815 FHIPEP family; Region: FHIPEP; pfam00771 744872004816 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 744872004817 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 744872004818 flagellar biosynthetic protein FliR; Region: fliR; TIGR01400 744872004819 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 744872004820 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 744872004821 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 744872004822 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 744872004823 flagellar motor switch protein FliN; Region: fliN; TIGR02480 744872004824 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 744872004825 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 744872004826 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 744872004827 flagellar motor protein MotB; Validated; Region: motB; PRK06667 744872004828 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 744872004829 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 744872004830 ligand binding site [chemical binding]; other site 744872004831 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 744872004832 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 744872004833 Flagellar protein (FlbD); Region: FlbD; pfam06289 744872004834 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 744872004835 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 744872004836 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 744872004837 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 744872004838 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 744872004839 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 744872004840 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 744872004841 MgtE intracellular N domain; Region: MgtE_N; cl15244 744872004842 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 744872004843 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 744872004844 putative active site [active] 744872004845 putative metal binding site [ion binding]; other site 744872004846 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 744872004847 Methyltransferase domain; Region: Methyltransf_23; pfam13489 744872004848 Methyltransferase domain; Region: Methyltransf_12; pfam08242 744872004849 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 744872004850 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 744872004851 substrate binding site [chemical binding]; other site 744872004852 ATP binding site [chemical binding]; other site 744872004853 MarR family; Region: MarR_2; pfam12802 744872004854 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 744872004855 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 744872004856 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 744872004857 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 744872004858 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 744872004859 active site residue [active] 744872004860 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 744872004861 CPxP motif; other site 744872004862 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 744872004863 Aspartokinases [Amino acid transport and metabolism]; Region: LysC; COG0527 744872004864 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 744872004865 nucleotide binding site [chemical binding]; other site 744872004866 substrate binding site [chemical binding]; other site 744872004867 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 744872004868 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 744872004869 Domain of unknown function DUF39; Region: DUF39; pfam01837 744872004870 NIL domain; Region: NIL; pfam09383 744872004871 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 744872004872 4Fe-4S binding domain; Region: Fer4; pfam00037 744872004873 hypothetical protein; Provisional; Region: PRK04334 744872004874 YcfA-like protein; Region: YcfA; pfam07927 744872004875 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 744872004876 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 744872004877 putative SAM binding site [chemical binding]; other site 744872004878 homodimer interface [polypeptide binding]; other site 744872004879 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 744872004880 Fe-S cluster binding site [ion binding]; other site 744872004881 active site 744872004882 primosome assembly protein PriA; Validated; Region: PRK05580 744872004883 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 744872004884 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 744872004885 ATP binding site [chemical binding]; other site 744872004886 putative Mg++ binding site [ion binding]; other site 744872004887 helicase superfamily c-terminal domain; Region: HELICc; smart00490 744872004888 ATP-binding site [chemical binding]; other site 744872004889 PEGA domain; Region: PEGA; pfam08308 744872004890 PEGA domain; Region: PEGA; pfam08308 744872004891 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 744872004892 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 744872004893 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 744872004894 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 744872004895 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 744872004896 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 744872004897 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 744872004898 putative dimer interface [polypeptide binding]; other site 744872004899 active site pocket [active] 744872004900 putative cataytic base [active] 744872004901 cobalamin synthase; Reviewed; Region: cobS; PRK00235 744872004902 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 744872004903 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 744872004904 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 744872004905 dimer interface [polypeptide binding]; other site 744872004906 active site 744872004907 metal binding site [ion binding]; metal-binding site 744872004908 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 744872004909 TrkA-C domain; Region: TrkA_C; pfam02080 744872004910 CAAX protease self-immunity; Region: Abi; pfam02517 744872004911 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 744872004912 putative active site [active] 744872004913 homotetrameric interface [polypeptide binding]; other site 744872004914 metal binding site [ion binding]; metal-binding site 744872004915 Transposase domain (DUF772); Region: DUF772; pfam05598 744872004916 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872004917 Flavodoxin domain; Region: Flavodoxin_5; cl17428 744872004918 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 744872004919 active site 744872004920 catalytic residues [active] 744872004921 4Fe-4S binding domain; Region: Fer4_5; pfam12801 744872004922 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 744872004923 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 744872004924 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 744872004925 endonuclease III; Region: ENDO3c; smart00478 744872004926 minor groove reading motif; other site 744872004927 helix-hairpin-helix signature motif; other site 744872004928 substrate binding pocket [chemical binding]; other site 744872004929 active site 744872004930 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 744872004931 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872004932 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872004933 dimer interface [polypeptide binding]; other site 744872004934 putative CheW interface [polypeptide binding]; other site 744872004935 cytidylate kinase; Provisional; Region: PRK04182 744872004936 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 744872004937 CMP-binding site; other site 744872004938 The sites determining sugar specificity; other site 744872004939 hypothetical protein; Provisional; Region: PRK11820 744872004940 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 744872004941 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 744872004942 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 744872004943 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 744872004944 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 744872004945 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 744872004946 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 744872004947 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 744872004948 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 744872004949 PAS domain; Region: PAS_9; pfam13426 744872004950 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 744872004951 Histidine kinase; Region: HisKA_2; pfam07568 744872004952 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872004953 ATP binding site [chemical binding]; other site 744872004954 Mg2+ binding site [ion binding]; other site 744872004955 G-X-G motif; other site 744872004956 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 744872004957 active site 744872004958 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 744872004959 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 744872004960 RNA binding surface [nucleotide binding]; other site 744872004961 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 744872004962 active site 744872004963 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 744872004964 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 744872004965 catalytic residue [active] 744872004966 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 744872004967 dimethyladenosine transferase; Region: ksgA; TIGR00755 744872004968 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 744872004969 Competence protein; Region: Competence; pfam03772 744872004970 PilZ domain; Region: PilZ; pfam07238 744872004971 CAAX protease self-immunity; Region: Abi; pfam02517 744872004972 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 744872004973 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 744872004974 catalytic residues [active] 744872004975 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 744872004976 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 744872004977 arginine decarboxylase; Provisional; Region: PRK05354 744872004978 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 744872004979 dimer interface [polypeptide binding]; other site 744872004980 active site 744872004981 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 744872004982 catalytic residues [active] 744872004983 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 744872004984 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 744872004985 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 744872004986 putative active site; other site 744872004987 catalytic triad [active] 744872004988 putative dimer interface [polypeptide binding]; other site 744872004989 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 744872004990 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 744872004991 isocitrate dehydrogenase; Validated; Region: PRK08299 744872004992 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 744872004993 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 744872004994 CoA binding domain; Region: CoA_binding; pfam02629 744872004995 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 744872004996 S-adenosylmethionine binding site [chemical binding]; other site 744872004997 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 744872004998 transcription termination factor Rho; Provisional; Region: rho; PRK09376 744872004999 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 744872005000 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 744872005001 RNA binding site [nucleotide binding]; other site 744872005002 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 744872005003 multimer interface [polypeptide binding]; other site 744872005004 Walker A motif; other site 744872005005 ATP binding site [chemical binding]; other site 744872005006 Walker B motif; other site 744872005007 Competence-damaged protein; Region: CinA; pfam02464 744872005008 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 744872005009 TPR repeat; Region: TPR_11; pfam13414 744872005010 binding surface 744872005011 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 744872005012 Response regulator receiver domain; Region: Response_reg; pfam00072 744872005013 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872005014 active site 744872005015 phosphorylation site [posttranslational modification] 744872005016 intermolecular recognition site; other site 744872005017 dimerization interface [polypeptide binding]; other site 744872005018 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 744872005019 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 744872005020 putative active site [active] 744872005021 catalytic triad [active] 744872005022 putative dimer interface [polypeptide binding]; other site 744872005023 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 744872005024 IHF - DNA interface [nucleotide binding]; other site 744872005025 IHF dimer interface [polypeptide binding]; other site 744872005026 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 744872005027 Transcriptional regulator; Region: Rrf2; cl17282 744872005028 RadC-like JAB domain; Region: RadC; pfam04002 744872005029 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 744872005030 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 744872005031 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 744872005032 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 744872005033 synthetase active site [active] 744872005034 NTP binding site [chemical binding]; other site 744872005035 metal binding site [ion binding]; metal-binding site 744872005036 TPR repeat; Region: TPR_11; pfam13414 744872005037 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 744872005038 TPR motif; other site 744872005039 binding surface 744872005040 TPR repeat; Region: TPR_11; pfam13414 744872005041 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 744872005042 binding surface 744872005043 TPR motif; other site 744872005044 TPR repeat; Region: TPR_11; pfam13414 744872005045 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 744872005046 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 744872005047 putative acyl-acceptor binding pocket; other site 744872005048 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 744872005049 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 744872005050 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 744872005051 ATP binding site [chemical binding]; other site 744872005052 putative Mg++ binding site [ion binding]; other site 744872005053 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 744872005054 nucleotide binding region [chemical binding]; other site 744872005055 ATP-binding site [chemical binding]; other site 744872005056 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 744872005057 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 744872005058 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 744872005059 active site 744872005060 DNA topoisomerase IV subunit A; Provisional; Region: PRK09631 744872005061 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 744872005062 CAP-like domain; other site 744872005063 active site 744872005064 primary dimer interface [polypeptide binding]; other site 744872005065 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 744872005066 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872005067 ATP binding site [chemical binding]; other site 744872005068 Mg2+ binding site [ion binding]; other site 744872005069 G-X-G motif; other site 744872005070 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 744872005071 anchoring element; other site 744872005072 dimer interface [polypeptide binding]; other site 744872005073 ATP binding site [chemical binding]; other site 744872005074 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 744872005075 active site 744872005076 putative metal-binding site [ion binding]; other site 744872005077 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 744872005078 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 744872005079 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 744872005080 elongation factor G; Reviewed; Region: PRK12740 744872005081 G1 box; other site 744872005082 putative GEF interaction site [polypeptide binding]; other site 744872005083 GTP/Mg2+ binding site [chemical binding]; other site 744872005084 Switch I region; other site 744872005085 G2 box; other site 744872005086 G3 box; other site 744872005087 Switch II region; other site 744872005088 G4 box; other site 744872005089 G5 box; other site 744872005090 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 744872005091 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 744872005092 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 744872005093 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_2; cd06113 744872005094 dimer interface [polypeptide binding]; other site 744872005095 active site 744872005096 citrylCoA binding site [chemical binding]; other site 744872005097 Citrate synthase; Region: Citrate_synt; pfam00285 744872005098 oxalacetate/citrate binding site [chemical binding]; other site 744872005099 coenzyme A binding site [chemical binding]; other site 744872005100 catalytic triad [active] 744872005101 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 744872005102 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 744872005103 putative dimer interface [polypeptide binding]; other site 744872005104 putative anticodon binding site; other site 744872005105 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 744872005106 homodimer interface [polypeptide binding]; other site 744872005107 motif 1; other site 744872005108 motif 2; other site 744872005109 active site 744872005110 motif 3; other site 744872005111 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 744872005112 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 744872005113 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 744872005114 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 744872005115 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 744872005116 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 744872005117 active site 744872005118 metal binding site [ion binding]; metal-binding site 744872005119 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 744872005120 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 744872005121 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 744872005122 Methyltransferase domain; Region: Methyltransf_23; pfam13489 744872005123 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 744872005124 S-adenosylmethionine binding site [chemical binding]; other site 744872005125 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 744872005126 active site 744872005127 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 744872005128 active site 744872005129 spiro-SPASM protein; Region: spiroSPASM; TIGR04321 744872005130 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 744872005131 active site 744872005132 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 744872005133 FeS/SAM binding site; other site 744872005134 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 744872005135 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 744872005136 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 744872005137 generic binding surface II; other site 744872005138 generic binding surface I; other site 744872005139 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 744872005140 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 744872005141 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872005142 ATP binding site [chemical binding]; other site 744872005143 Mg2+ binding site [ion binding]; other site 744872005144 G-X-G motif; other site 744872005145 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 744872005146 ATP binding site [chemical binding]; other site 744872005147 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 744872005148 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 744872005149 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 744872005150 metal binding site [ion binding]; metal-binding site 744872005151 nucleotidyl binding site; other site 744872005152 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 744872005153 active site 744872005154 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 744872005155 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 744872005156 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 744872005157 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 744872005158 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 744872005159 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 744872005160 Nitrogen regulatory protein P-II; Region: P-II; smart00938 744872005161 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 744872005162 Nif-specific regulatory protein; Region: nifA; TIGR01817 744872005163 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 744872005164 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 744872005165 Walker A motif; other site 744872005166 ATP binding site [chemical binding]; other site 744872005167 Walker B motif; other site 744872005168 arginine finger; other site 744872005169 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 744872005170 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 744872005171 Carbon starvation protein CstA; Region: CstA; pfam02554 744872005172 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 744872005173 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 744872005174 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 744872005175 P loop; other site 744872005176 Nucleotide binding site [chemical binding]; other site 744872005177 DTAP/Switch II; other site 744872005178 Switch I; other site 744872005179 Predicted transcriptional regulators [Transcription]; Region: COG1725 744872005180 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 744872005181 DNA-binding site [nucleotide binding]; DNA binding site 744872005182 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 744872005183 B12 binding site [chemical binding]; other site 744872005184 heterodimer interface [polypeptide binding]; other site 744872005185 cobalt ligand [ion binding]; other site 744872005186 MutL protein; Region: MutL; pfam13941 744872005187 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 744872005188 substrate binding site [chemical binding]; other site 744872005189 B12 cofactor binding site [chemical binding]; other site 744872005190 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 744872005191 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 744872005192 Methylaspartate ammonia-lyase [Amino acid transport and metabolism]; Region: Mal; COG3799 744872005193 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 744872005194 dimer interface [polypeptide binding]; other site 744872005195 active site 744872005196 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 744872005197 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 744872005198 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 744872005199 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 744872005200 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 744872005201 active site 744872005202 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 744872005203 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 744872005204 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 744872005205 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 744872005206 Walker A motif/ATP binding site; other site 744872005207 Walker B motif; other site 744872005208 flagellar assembly protein H; Validated; Region: fliH; PRK06669 744872005209 Flagellar assembly protein FliH; Region: FliH; pfam02108 744872005210 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 744872005211 FliG C-terminal domain; Region: FliG_C; pfam01706 744872005212 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 744872005213 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 744872005214 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 744872005215 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 744872005216 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 744872005217 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 744872005218 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 744872005219 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12622 744872005220 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 744872005221 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 744872005222 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 744872005223 Walker A motif; other site 744872005224 ATP binding site [chemical binding]; other site 744872005225 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 744872005226 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 744872005227 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 744872005228 active site 744872005229 HslU subunit interaction site [polypeptide binding]; other site 744872005230 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 744872005231 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 744872005232 active site 744872005233 DNA binding site [nucleotide binding] 744872005234 Int/Topo IB signature motif; other site 744872005235 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 744872005236 DNA topoisomerase I; Validated; Region: PRK05582 744872005237 active site 744872005238 interdomain interaction site; other site 744872005239 putative metal-binding site [ion binding]; other site 744872005240 nucleotide binding site [chemical binding]; other site 744872005241 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 744872005242 domain I; other site 744872005243 DNA binding groove [nucleotide binding] 744872005244 phosphate binding site [ion binding]; other site 744872005245 domain II; other site 744872005246 domain III; other site 744872005247 nucleotide binding site [chemical binding]; other site 744872005248 catalytic site [active] 744872005249 domain IV; other site 744872005250 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 744872005251 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 744872005252 DNA protecting protein DprA; Region: dprA; TIGR00732 744872005253 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 744872005254 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 744872005255 TPR motif; other site 744872005256 binding surface 744872005257 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 744872005258 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 744872005259 active site 744872005260 DNA binding site [nucleotide binding] 744872005261 Int/Topo IB signature motif; other site 744872005262 cell division protein FtsZ; Validated; Region: PRK09330 744872005263 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 744872005264 nucleotide binding site [chemical binding]; other site 744872005265 SulA interaction site; other site 744872005266 cell division protein FtsA; Region: ftsA; TIGR01174 744872005267 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 744872005268 nucleotide binding site [chemical binding]; other site 744872005269 Cell division protein FtsA; Region: FtsA; pfam14450 744872005270 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 744872005271 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 744872005272 cell division protein FtsW; Region: ftsW; TIGR02614 744872005273 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 744872005274 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 744872005275 Mg++ binding site [ion binding]; other site 744872005276 putative catalytic motif [active] 744872005277 putative substrate binding site [chemical binding]; other site 744872005278 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 744872005279 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 744872005280 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 744872005281 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 744872005282 Cell division protein FtsL; Region: FtsL; cl11433 744872005283 MraW methylase family; Region: Methyltransf_5; cl17771 744872005284 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 744872005285 MraZ protein; Region: MraZ; pfam02381 744872005286 cell division protein MraZ; Reviewed; Region: PRK00326 744872005287 MraZ protein; Region: MraZ; pfam02381 744872005288 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 744872005289 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 744872005290 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 744872005291 intersubunit interface [polypeptide binding]; other site 744872005292 active site 744872005293 zinc binding site [ion binding]; other site 744872005294 Na+ binding site [ion binding]; other site 744872005295 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 744872005296 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 744872005297 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 744872005298 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 744872005299 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 744872005300 23S rRNA binding site [nucleotide binding]; other site 744872005301 L21 binding site [polypeptide binding]; other site 744872005302 L13 binding site [polypeptide binding]; other site 744872005303 Protein of unknown function (DUF904); Region: DUF904; pfam06005 744872005304 Cell division protein ZapA; Region: ZapA; pfam05164 744872005305 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 744872005306 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 744872005307 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 744872005308 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 744872005309 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 744872005310 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 744872005311 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872005312 Zn2+ binding site [ion binding]; other site 744872005313 Mg2+ binding site [ion binding]; other site 744872005314 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 744872005315 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 744872005316 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 744872005317 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 744872005318 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 744872005319 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 744872005320 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 744872005321 E3 interaction surface; other site 744872005322 lipoyl attachment site [posttranslational modification]; other site 744872005323 e3 binding domain; Region: E3_binding; pfam02817 744872005324 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 744872005325 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 744872005326 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 744872005327 alpha subunit interface [polypeptide binding]; other site 744872005328 TPP binding site [chemical binding]; other site 744872005329 heterodimer interface [polypeptide binding]; other site 744872005330 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 744872005331 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 744872005332 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 744872005333 tetramer interface [polypeptide binding]; other site 744872005334 TPP-binding site [chemical binding]; other site 744872005335 heterodimer interface [polypeptide binding]; other site 744872005336 phosphorylation loop region [posttranslational modification] 744872005337 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 744872005338 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 744872005339 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 744872005340 Walker A/P-loop; other site 744872005341 ATP binding site [chemical binding]; other site 744872005342 Q-loop/lid; other site 744872005343 ABC transporter signature motif; other site 744872005344 Walker B; other site 744872005345 D-loop; other site 744872005346 H-loop/switch region; other site 744872005347 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 744872005348 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872005349 dimer interface [polypeptide binding]; other site 744872005350 conserved gate region; other site 744872005351 putative PBP binding loops; other site 744872005352 ABC-ATPase subunit interface; other site 744872005353 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 744872005354 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872005355 dimer interface [polypeptide binding]; other site 744872005356 conserved gate region; other site 744872005357 putative PBP binding loops; other site 744872005358 ABC-ATPase subunit interface; other site 744872005359 PBP superfamily domain; Region: PBP_like_2; cl17296 744872005360 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 744872005361 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 744872005362 Integral membrane protein DUF92; Region: DUF92; pfam01940 744872005363 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 744872005364 active site lid residues [active] 744872005365 substrate binding pocket [chemical binding]; other site 744872005366 catalytic residues [active] 744872005367 substrate-Mg2+ binding site; other site 744872005368 aspartate-rich region 1; other site 744872005369 aspartate-rich region 2; other site 744872005370 phytoene desaturase; Region: crtI_fam; TIGR02734 744872005371 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 744872005372 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 744872005373 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 744872005374 catalytic loop [active] 744872005375 iron binding site [ion binding]; other site 744872005376 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 744872005377 FAD binding pocket [chemical binding]; other site 744872005378 conserved FAD binding motif [chemical binding]; other site 744872005379 phosphate binding motif [ion binding]; other site 744872005380 beta-alpha-beta structure motif; other site 744872005381 NAD binding pocket [chemical binding]; other site 744872005382 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 744872005383 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 744872005384 FMN-binding domain; Region: FMN_bind; cl01081 744872005385 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 744872005386 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 744872005387 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 744872005388 lipoyl synthase; Provisional; Region: PRK05481 744872005389 integron integrase; Region: integrase_gron; TIGR02249 744872005390 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 744872005391 active site 744872005392 DNA binding site [nucleotide binding] 744872005393 Int/Topo IB signature motif; other site 744872005394 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 744872005395 Mrr N-terminal domain; Region: Mrr_N; pfam14338 744872005396 Restriction endonuclease; Region: Mrr_cat; pfam04471 744872005397 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 744872005398 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 744872005399 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 744872005400 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 744872005401 Transposase domain (DUF772); Region: DUF772; pfam05598 744872005402 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872005403 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 744872005404 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 744872005405 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 744872005406 putative active site [active] 744872005407 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 744872005408 Mrr N-terminal domain; Region: Mrr_N; pfam14338 744872005409 Restriction endonuclease; Region: Mrr_cat; pfam04471 744872005410 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 744872005411 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 744872005412 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 744872005413 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 744872005414 active site 744872005415 TfoX N-terminal domain; Region: TfoX_N; cl17592 744872005416 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 744872005417 Mrr N-terminal domain; Region: Mrr_N; pfam14338 744872005418 Restriction endonuclease; Region: Mrr_cat; pfam04471 744872005419 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 744872005420 putative active site [active] 744872005421 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 744872005422 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 744872005423 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 744872005424 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 744872005425 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 744872005426 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 744872005427 putative active site [active] 744872005428 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 744872005429 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 744872005430 active site 744872005431 TfoX N-terminal domain; Region: TfoX_N; cl17592 744872005432 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 744872005433 catalytic core [active] 744872005434 Bacterial SH3 domain; Region: SH3_3; pfam08239 744872005435 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 744872005436 putative active site [active] 744872005437 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 744872005438 ATP binding site [chemical binding]; other site 744872005439 putative Mg++ binding site [ion binding]; other site 744872005440 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 744872005441 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 744872005442 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 744872005443 CAAX protease self-immunity; Region: Abi; pfam02517 744872005444 reverse gyrase; Reviewed; Region: PRK09401 744872005445 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 744872005446 putative active site [active] 744872005447 homotetrameric interface [polypeptide binding]; other site 744872005448 metal binding site [ion binding]; metal-binding site 744872005449 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 744872005450 Transposase, Mutator family; Region: Transposase_mut; pfam00872 744872005451 MULE transposase domain; Region: MULE; pfam10551 744872005452 Pleckstrin homology-like domain; Region: PH-like; cl17171 744872005453 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 744872005454 protein binding site [polypeptide binding]; other site 744872005455 Creatinine amidohydrolase; Region: Creatininase; pfam02633 744872005456 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 744872005457 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 744872005458 Walker A/P-loop; other site 744872005459 ATP binding site [chemical binding]; other site 744872005460 Q-loop/lid; other site 744872005461 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 744872005462 ABC transporter signature motif; other site 744872005463 Walker B; other site 744872005464 D-loop; other site 744872005465 H-loop/switch region; other site 744872005466 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 744872005467 ATP-NAD kinase; Region: NAD_kinase; pfam01513 744872005468 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 744872005469 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 744872005470 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 744872005471 catalytic residue [active] 744872005472 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 744872005473 putative CheA interaction surface; other site 744872005474 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 744872005475 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 744872005476 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 744872005477 protein binding site [polypeptide binding]; other site 744872005478 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 744872005479 protein binding site [polypeptide binding]; other site 744872005480 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 744872005481 active site 744872005482 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 744872005483 HSP70 interaction site [polypeptide binding]; other site 744872005484 Flavodoxin domain; Region: Flavodoxin_5; cl17428 744872005485 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 744872005486 Ligand Binding Site [chemical binding]; other site 744872005487 ATP synthase subunit D; Region: ATP-synt_D; cl00613 744872005488 V-type ATP synthase subunit B; Provisional; Region: PRK04196 744872005489 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 744872005490 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 744872005491 Walker A motif homologous position; other site 744872005492 Walker B motif; other site 744872005493 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 744872005494 V-type ATP synthase subunit A; Provisional; Region: PRK04192 744872005495 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 744872005496 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 744872005497 Walker A motif/ATP binding site; other site 744872005498 Walker B motif; other site 744872005499 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 744872005500 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 744872005501 Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]; Region: NtpI; COG1269 744872005502 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 744872005503 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 744872005504 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 744872005505 active site 744872005506 phosphorylation site [posttranslational modification] 744872005507 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 744872005508 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 744872005509 triosephosphate isomerase; Provisional; Region: PRK14567 744872005510 substrate binding site [chemical binding]; other site 744872005511 dimer interface [polypeptide binding]; other site 744872005512 catalytic triad [active] 744872005513 Phosphoglycerate kinase; Region: PGK; pfam00162 744872005514 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 744872005515 substrate binding site [chemical binding]; other site 744872005516 hinge regions; other site 744872005517 ADP binding site [chemical binding]; other site 744872005518 catalytic site [active] 744872005519 cytosolic glyceraldehyde 3-phosphate dehydrogenase; Provisional; Region: PTZ00434 744872005520 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 744872005521 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 744872005522 HD domain; Region: HD_4; pfam13328 744872005523 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 744872005524 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 744872005525 active site 744872005526 HIGH motif; other site 744872005527 nucleotide binding site [chemical binding]; other site 744872005528 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 744872005529 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 744872005530 active site 744872005531 KMSKS motif; other site 744872005532 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 744872005533 tRNA binding surface [nucleotide binding]; other site 744872005534 anticodon binding site; other site 744872005535 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 744872005536 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 744872005537 LytB protein; Region: LYTB; cl00507 744872005538 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 744872005539 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 744872005540 Protein export membrane protein; Region: SecD_SecF; cl14618 744872005541 protein-export membrane protein SecD; Region: secD; TIGR01129 744872005542 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 744872005543 Preprotein translocase subunit; Region: YajC; pfam02699 744872005544 Rubredoxin [Energy production and conversion]; Region: COG1773 744872005545 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 744872005546 iron binding site [ion binding]; other site 744872005547 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 744872005548 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 744872005549 non-heme iron binding site [ion binding]; other site 744872005550 dimer interface [polypeptide binding]; other site 744872005551 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 744872005552 non-heme iron binding site [ion binding]; other site 744872005553 dimer interface [polypeptide binding]; other site 744872005554 Rubrerythrin [Energy production and conversion]; Region: COG1592 744872005555 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 744872005556 binuclear metal center [ion binding]; other site 744872005557 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 744872005558 iron binding site [ion binding]; other site 744872005559 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 744872005560 TPR motif; other site 744872005561 binding surface 744872005562 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 744872005563 binding surface 744872005564 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872005565 TPR motif; other site 744872005566 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872005567 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 744872005568 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 744872005569 N-acetyl-D-glucosamine binding site [chemical binding]; other site 744872005570 catalytic residue [active] 744872005571 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 744872005572 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 744872005573 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 744872005574 Clp amino terminal domain; Region: Clp_N; pfam02861 744872005575 Clp amino terminal domain; Region: Clp_N; pfam02861 744872005576 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 744872005577 Walker A motif; other site 744872005578 ATP binding site [chemical binding]; other site 744872005579 Walker B motif; other site 744872005580 arginine finger; other site 744872005581 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 744872005582 Walker A motif; other site 744872005583 ATP binding site [chemical binding]; other site 744872005584 Walker B motif; other site 744872005585 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 744872005586 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 744872005587 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 744872005588 active site 744872005589 metal binding site [ion binding]; metal-binding site 744872005590 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 744872005591 CHASE4 domain; Region: CHASE4; pfam05228 744872005592 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 744872005593 Histidine kinase; Region: HisKA_2; pfam07568 744872005594 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 744872005595 ATP binding site [chemical binding]; other site 744872005596 G-X-G motif; other site 744872005597 GMP synthase; Reviewed; Region: guaA; PRK00074 744872005598 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 744872005599 AMP/PPi binding site [chemical binding]; other site 744872005600 candidate oxyanion hole; other site 744872005601 catalytic triad [active] 744872005602 potential glutamine specificity residues [chemical binding]; other site 744872005603 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 744872005604 ATP Binding subdomain [chemical binding]; other site 744872005605 Ligand Binding sites [chemical binding]; other site 744872005606 Dimerization subdomain; other site 744872005607 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 744872005608 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 744872005609 GDP-binding site [chemical binding]; other site 744872005610 ACT binding site; other site 744872005611 IMP binding site; other site 744872005612 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 744872005613 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 744872005614 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 744872005615 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 744872005616 active site 744872005617 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 744872005618 Adenylsuccinate lyase (ASL)_like; Region: Adenylsuccinate_lyase_like; cd01595 744872005619 tetramer interface [polypeptide binding]; other site 744872005620 active site 744872005621 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 744872005622 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 744872005623 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 744872005624 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 744872005625 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 744872005626 active site 744872005627 motif I; other site 744872005628 motif II; other site 744872005629 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 744872005630 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 744872005631 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 744872005632 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 744872005633 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 744872005634 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 744872005635 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 744872005636 active site 744872005637 dimer interface [polypeptide binding]; other site 744872005638 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 744872005639 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 744872005640 active site 744872005641 FMN binding site [chemical binding]; other site 744872005642 substrate binding site [chemical binding]; other site 744872005643 3Fe-4S cluster binding site [ion binding]; other site 744872005644 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 744872005645 domain interface; other site 744872005646 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 744872005647 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 744872005648 ligand binding site [chemical binding]; other site 744872005649 HAMP domain; Region: HAMP; pfam00672 744872005650 dimerization interface [polypeptide binding]; other site 744872005651 Histidine kinase; Region: His_kinase; pfam06580 744872005652 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872005653 ATP binding site [chemical binding]; other site 744872005654 Mg2+ binding site [ion binding]; other site 744872005655 G-X-G motif; other site 744872005656 Response regulator receiver domain; Region: Response_reg; pfam00072 744872005657 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872005658 active site 744872005659 phosphorylation site [posttranslational modification] 744872005660 intermolecular recognition site; other site 744872005661 dimerization interface [polypeptide binding]; other site 744872005662 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 744872005663 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872005664 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 744872005665 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 744872005666 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 744872005667 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 744872005668 ligand binding site [chemical binding]; other site 744872005669 calcium binding site [ion binding]; other site 744872005670 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 744872005671 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 744872005672 Walker A/P-loop; other site 744872005673 ATP binding site [chemical binding]; other site 744872005674 Q-loop/lid; other site 744872005675 ABC transporter signature motif; other site 744872005676 Walker B; other site 744872005677 D-loop; other site 744872005678 H-loop/switch region; other site 744872005679 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872005680 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872005681 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872005682 TM-ABC transporter signature motif; other site 744872005683 DGC domain; Region: DGC; pfam08859 744872005684 Predicted permease; Region: DUF318; cl17795 744872005685 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 744872005686 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 744872005687 G1 box; other site 744872005688 GTP/Mg2+ binding site [chemical binding]; other site 744872005689 Switch I region; other site 744872005690 G2 box; other site 744872005691 Switch II region; other site 744872005692 G3 box; other site 744872005693 G4 box; other site 744872005694 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 744872005695 Lyase; Region: Lyase_1; pfam00206 744872005696 tetramer interface [polypeptide binding]; other site 744872005697 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 744872005698 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 744872005699 FeS/SAM binding site; other site 744872005700 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 744872005701 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 744872005702 FeS/SAM binding site; other site 744872005703 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 744872005704 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 744872005705 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 744872005706 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 744872005707 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 744872005708 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 744872005709 putative active site [active] 744872005710 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 744872005711 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 744872005712 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872005713 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 744872005714 dimer interface [polypeptide binding]; other site 744872005715 putative CheW interface [polypeptide binding]; other site 744872005716 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 744872005717 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 744872005718 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 744872005719 active site 744872005720 phosphorylation site [posttranslational modification] 744872005721 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 744872005722 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 744872005723 hexamer interface [polypeptide binding]; other site 744872005724 ligand binding site [chemical binding]; other site 744872005725 putative active site [active] 744872005726 NAD(P) binding site [chemical binding]; other site 744872005727 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 744872005728 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 744872005729 AsnC family; Region: AsnC_trans_reg; pfam01037 744872005730 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 744872005731 putative substrate translocation pore; other site 744872005732 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 744872005733 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 744872005734 active site 744872005735 metal binding site [ion binding]; metal-binding site 744872005736 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 744872005737 exonuclease SbcC; Region: sbcc; TIGR00618 744872005738 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 744872005739 Walker A/P-loop; other site 744872005740 ATP binding site [chemical binding]; other site 744872005741 Q-loop/lid; other site 744872005742 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 744872005743 ABC transporter signature motif; other site 744872005744 Walker B; other site 744872005745 D-loop; other site 744872005746 H-loop/switch region; other site 744872005747 CHASE4 domain; Region: CHASE4; pfam05228 744872005748 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 744872005749 PAS domain; Region: PAS_9; pfam13426 744872005750 putative active site [active] 744872005751 heme pocket [chemical binding]; other site 744872005752 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 744872005753 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872005754 metal binding site [ion binding]; metal-binding site 744872005755 active site 744872005756 I-site; other site 744872005757 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 744872005758 Isochorismatase family; Region: Isochorismatase; pfam00857 744872005759 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 744872005760 catalytic triad [active] 744872005761 metal binding site [ion binding]; metal-binding site 744872005762 conserved cis-peptide bond; other site 744872005763 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 744872005764 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 744872005765 active site 744872005766 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 744872005767 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 744872005768 active site 744872005769 catalytic site [active] 744872005770 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872005771 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 744872005772 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872005773 dimer interface [polypeptide binding]; other site 744872005774 conserved gate region; other site 744872005775 ABC-ATPase subunit interface; other site 744872005776 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872005777 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872005778 dimer interface [polypeptide binding]; other site 744872005779 conserved gate region; other site 744872005780 putative PBP binding loops; other site 744872005781 ABC-ATPase subunit interface; other site 744872005782 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 744872005783 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 744872005784 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 744872005785 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 744872005786 substrate binding pocket [chemical binding]; other site 744872005787 membrane-bound complex binding site; other site 744872005788 hinge residues; other site 744872005789 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 744872005790 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872005791 dimer interface [polypeptide binding]; other site 744872005792 conserved gate region; other site 744872005793 putative PBP binding loops; other site 744872005794 ABC-ATPase subunit interface; other site 744872005795 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 744872005796 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 744872005797 Ligand Binding Site [chemical binding]; other site 744872005798 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 744872005799 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 744872005800 MFS/sugar transport protein; Region: MFS_2; pfam13347 744872005801 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 744872005802 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 744872005803 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 744872005804 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 744872005805 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 744872005806 active site 744872005807 catalytic site [active] 744872005808 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; pfam09261 744872005809 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 744872005810 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872005811 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872005812 dimer interface [polypeptide binding]; other site 744872005813 conserved gate region; other site 744872005814 putative PBP binding loops; other site 744872005815 ABC-ATPase subunit interface; other site 744872005816 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 744872005817 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872005818 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872005819 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872005820 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 744872005821 DNA-binding site [nucleotide binding]; DNA binding site 744872005822 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872005823 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 744872005824 ligand binding site [chemical binding]; other site 744872005825 dimerization interface [polypeptide binding]; other site 744872005826 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 744872005827 active site 744872005828 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 744872005829 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 744872005830 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 744872005831 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 744872005832 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 744872005833 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 744872005834 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 744872005835 DNA-binding site [nucleotide binding]; DNA binding site 744872005836 Predicted transcriptional regulators [Transcription]; Region: COG1725 744872005837 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 744872005838 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 744872005839 ligand binding site [chemical binding]; other site 744872005840 dimerization interface [polypeptide binding]; other site 744872005841 NAD-dependent deacetylase; Provisional; Region: PRK00481 744872005842 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 744872005843 Transposase domain (DUF772); Region: DUF772; pfam05598 744872005844 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872005845 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 744872005846 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 744872005847 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 744872005848 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 744872005849 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 744872005850 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 744872005851 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 744872005852 Predicted transcriptional regulator [Transcription]; Region: COG2378 744872005853 HTH domain; Region: HTH_11; pfam08279 744872005854 WYL domain; Region: WYL; pfam13280 744872005855 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 744872005856 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 744872005857 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 744872005858 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 744872005859 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 744872005860 active site 744872005861 HIGH motif; other site 744872005862 dimer interface [polypeptide binding]; other site 744872005863 KMSKS motif; other site 744872005864 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 744872005865 putative active site [active] 744872005866 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 744872005867 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 744872005868 active site 744872005869 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 744872005870 EamA-like transporter family; Region: EamA; pfam00892 744872005871 EamA-like transporter family; Region: EamA; pfam00892 744872005872 methionine sulfoxide reductase B; Provisional; Region: PRK00222 744872005873 SelR domain; Region: SelR; pfam01641 744872005874 excinuclease ABC subunit B; Provisional; Region: PRK05298 744872005875 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 744872005876 ATP binding site [chemical binding]; other site 744872005877 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 744872005878 nucleotide binding region [chemical binding]; other site 744872005879 ATP-binding site [chemical binding]; other site 744872005880 Ultra-violet resistance protein B; Region: UvrB; pfam12344 744872005881 UvrB/uvrC motif; Region: UVR; pfam02151 744872005882 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872005883 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872005884 ATP binding site [chemical binding]; other site 744872005885 Mg2+ binding site [ion binding]; other site 744872005886 G-X-G motif; other site 744872005887 putative hydrolase; Provisional; Region: PRK02113 744872005888 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 744872005889 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 744872005890 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 744872005891 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 744872005892 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 744872005893 homodimer interface [polypeptide binding]; other site 744872005894 substrate-cofactor binding pocket; other site 744872005895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872005896 catalytic residue [active] 744872005897 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872005898 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872005899 dimer interface [polypeptide binding]; other site 744872005900 putative CheW interface [polypeptide binding]; other site 744872005901 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 744872005902 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 744872005903 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 744872005904 Walker A motif; other site 744872005905 ATP binding site [chemical binding]; other site 744872005906 Walker B motif; other site 744872005907 arginine finger; other site 744872005908 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 744872005909 Cache domain; Region: Cache_1; pfam02743 744872005910 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872005911 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 744872005912 Histidine kinase; Region: HisKA_2; pfam07568 744872005913 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872005914 ATP binding site [chemical binding]; other site 744872005915 Mg2+ binding site [ion binding]; other site 744872005916 G-X-G motif; other site 744872005917 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 744872005918 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 744872005919 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 744872005920 motif II; other site 744872005921 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 744872005922 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 744872005923 ligand binding site [chemical binding]; other site 744872005924 flexible hinge region; other site 744872005925 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 744872005926 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 744872005927 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 744872005928 ATP binding site [chemical binding]; other site 744872005929 putative Mg++ binding site [ion binding]; other site 744872005930 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 744872005931 nucleotide binding region [chemical binding]; other site 744872005932 ATP-binding site [chemical binding]; other site 744872005933 helicase 45; Provisional; Region: PTZ00424 744872005934 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 744872005935 ATP binding site [chemical binding]; other site 744872005936 Mg++ binding site [ion binding]; other site 744872005937 motif III; other site 744872005938 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 744872005939 nucleotide binding region [chemical binding]; other site 744872005940 ATP-binding site [chemical binding]; other site 744872005941 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 744872005942 RNA binding site [nucleotide binding]; other site 744872005943 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 744872005944 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 744872005945 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 744872005946 phosphate binding site [ion binding]; other site 744872005947 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 744872005948 FliG C-terminal domain; Region: FliG_C; pfam01706 744872005949 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 744872005950 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 744872005951 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 744872005952 Peptidase M16C associated; Region: M16C_assoc; pfam08367 744872005953 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 744872005954 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 744872005955 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 744872005956 ssDNA binding site; other site 744872005957 generic binding surface II; other site 744872005958 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 744872005959 ATP binding site [chemical binding]; other site 744872005960 putative Mg++ binding site [ion binding]; other site 744872005961 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 744872005962 nucleotide binding region [chemical binding]; other site 744872005963 ATP-binding site [chemical binding]; other site 744872005964 YGGT family; Region: YGGT; pfam02325 744872005965 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 744872005966 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872005967 active site 744872005968 phosphorylation site [posttranslational modification] 744872005969 intermolecular recognition site; other site 744872005970 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 744872005971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872005972 active site 744872005973 phosphorylation site [posttranslational modification] 744872005974 intermolecular recognition site; other site 744872005975 dimerization interface [polypeptide binding]; other site 744872005976 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 744872005977 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872005978 metal binding site [ion binding]; metal-binding site 744872005979 active site 744872005980 I-site; other site 744872005981 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 744872005982 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 744872005983 active site 744872005984 PHP Thumb interface [polypeptide binding]; other site 744872005985 metal binding site [ion binding]; metal-binding site 744872005986 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 744872005987 generic binding surface II; other site 744872005988 generic binding surface I; other site 744872005989 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872005990 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 744872005991 DNA binding site [nucleotide binding] 744872005992 domain linker motif; other site 744872005993 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 744872005994 dimerization interface [polypeptide binding]; other site 744872005995 ligand binding site [chemical binding]; other site 744872005996 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 744872005997 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 744872005998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872005999 homodimer interface [polypeptide binding]; other site 744872006000 catalytic residue [active] 744872006001 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 744872006002 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 744872006003 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 744872006004 Peptidase family M23; Region: Peptidase_M23; pfam01551 744872006005 DHH family; Region: DHH; pfam01368 744872006006 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 744872006007 DHHA1 domain; Region: DHHA1; pfam02272 744872006008 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 744872006009 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 744872006010 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 744872006011 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 744872006012 Recombination protein O N terminal; Region: RecO_N; pfam11967 744872006013 Recombination protein O C terminal; Region: RecO_C; pfam02565 744872006014 N-acetylglutamate synthase; Validated; Region: PRK05279 744872006015 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 744872006016 nucleotide binding site [chemical binding]; other site 744872006017 substrate binding site [chemical binding]; other site 744872006018 N-acetylglutamate synthase and related acetyltransferases [Amino acid transport and metabolism]; Region: ArgA; COG1246 744872006019 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 744872006020 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 744872006021 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 744872006022 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 744872006023 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 744872006024 TSCPD domain; Region: TSCPD; pfam12637 744872006025 TIGR03545 family protein; Region: TIGR03545 744872006026 TIGR03546 family protein; Region: TIGR03546 744872006027 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 744872006028 adenylate kinase; Reviewed; Region: adk; PRK00279 744872006029 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 744872006030 AMP-binding site [chemical binding]; other site 744872006031 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 744872006032 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 744872006033 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 744872006034 FMN binding site [chemical binding]; other site 744872006035 active site 744872006036 catalytic residues [active] 744872006037 substrate binding site [chemical binding]; other site 744872006038 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 744872006039 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 744872006040 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 744872006041 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 744872006042 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 744872006043 E3 interaction surface; other site 744872006044 lipoyl attachment site [posttranslational modification]; other site 744872006045 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 744872006046 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 744872006047 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 744872006048 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 744872006049 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 744872006050 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 744872006051 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 744872006052 tetramer interface [polypeptide binding]; other site 744872006053 TPP-binding site [chemical binding]; other site 744872006054 heterodimer interface [polypeptide binding]; other site 744872006055 phosphorylation loop region [posttranslational modification] 744872006056 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 744872006057 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 744872006058 PYR/PP interface [polypeptide binding]; other site 744872006059 dimer interface [polypeptide binding]; other site 744872006060 TPP binding site [chemical binding]; other site 744872006061 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 744872006062 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 744872006063 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 744872006064 active site 744872006065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 744872006066 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 744872006067 NAD(P) binding site [chemical binding]; other site 744872006068 active site 744872006069 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 744872006070 nucleotide binding site [chemical binding]; other site 744872006071 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 744872006072 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 744872006073 putative NAD(P) binding site [chemical binding]; other site 744872006074 catalytic Zn binding site [ion binding]; other site 744872006075 HD supefamily hydrolase [General function prediction only]; Region: COG3294 744872006076 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 744872006077 active site 744872006078 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 744872006079 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 744872006080 AAA domain; Region: AAA_14; pfam13173 744872006081 Cache domain; Region: Cache_1; pfam02743 744872006082 HAMP domain; Region: HAMP; pfam00672 744872006083 dimerization interface [polypeptide binding]; other site 744872006084 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872006085 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872006086 dimer interface [polypeptide binding]; other site 744872006087 putative CheW interface [polypeptide binding]; other site 744872006088 Transposase domain (DUF772); Region: DUF772; pfam05598 744872006089 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872006090 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 744872006091 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 744872006092 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 744872006093 Outer membrane efflux protein; Region: OEP; pfam02321 744872006094 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 744872006095 FtsX-like permease family; Region: FtsX; pfam02687 744872006096 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 744872006097 FtsX-like permease family; Region: FtsX; pfam02687 744872006098 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 744872006099 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 744872006100 Walker A/P-loop; other site 744872006101 ATP binding site [chemical binding]; other site 744872006102 Q-loop/lid; other site 744872006103 ABC transporter signature motif; other site 744872006104 Walker B; other site 744872006105 D-loop; other site 744872006106 H-loop/switch region; other site 744872006107 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 744872006108 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 744872006109 carboxyltransferase (CT) interaction site; other site 744872006110 biotinylation site [posttranslational modification]; other site 744872006111 HlyD family secretion protein; Region: HlyD_3; pfam13437 744872006112 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872006113 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 744872006114 dimer interface [polypeptide binding]; other site 744872006115 phosphorylation site [posttranslational modification] 744872006116 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872006117 ATP binding site [chemical binding]; other site 744872006118 Mg2+ binding site [ion binding]; other site 744872006119 G-X-G motif; other site 744872006120 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 744872006121 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872006122 active site 744872006123 phosphorylation site [posttranslational modification] 744872006124 intermolecular recognition site; other site 744872006125 dimerization interface [polypeptide binding]; other site 744872006126 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 744872006127 DNA binding site [nucleotide binding] 744872006128 Cache domain; Region: Cache_1; pfam02743 744872006129 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 744872006130 dimerization interface [polypeptide binding]; other site 744872006131 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872006132 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872006133 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872006134 dimer interface [polypeptide binding]; other site 744872006135 putative CheW interface [polypeptide binding]; other site 744872006136 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 744872006137 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872006138 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872006139 TM-ABC transporter signature motif; other site 744872006140 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 744872006141 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 744872006142 Walker A/P-loop; other site 744872006143 ATP binding site [chemical binding]; other site 744872006144 Q-loop/lid; other site 744872006145 ABC transporter signature motif; other site 744872006146 Walker B; other site 744872006147 D-loop; other site 744872006148 H-loop/switch region; other site 744872006149 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872006150 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 744872006151 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 744872006152 putative ligand binding site [chemical binding]; other site 744872006153 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 744872006154 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 744872006155 putative ligand binding site [chemical binding]; other site 744872006156 Response regulator receiver domain; Region: Response_reg; pfam00072 744872006157 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872006158 active site 744872006159 phosphorylation site [posttranslational modification] 744872006160 intermolecular recognition site; other site 744872006161 dimerization interface [polypeptide binding]; other site 744872006162 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 744872006163 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872006164 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 744872006165 dimerization interface [polypeptide binding]; other site 744872006166 Histidine kinase; Region: His_kinase; pfam06580 744872006167 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872006168 ATP binding site [chemical binding]; other site 744872006169 Mg2+ binding site [ion binding]; other site 744872006170 G-X-G motif; other site 744872006171 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 744872006172 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 744872006173 ligand binding site [chemical binding]; other site 744872006174 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 744872006175 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 744872006176 Clp amino terminal domain; Region: Clp_N; pfam02861 744872006177 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 744872006178 Walker A motif; other site 744872006179 ATP binding site [chemical binding]; other site 744872006180 Walker B motif; other site 744872006181 arginine finger; other site 744872006182 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 744872006183 Walker A motif; other site 744872006184 ATP binding site [chemical binding]; other site 744872006185 Walker B motif; other site 744872006186 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 744872006187 Uncharacterized conserved protein [Function unknown]; Region: COG2127 744872006188 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 744872006189 putative active site [active] 744872006190 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 744872006191 active site 744872006192 putative catalytic site [active] 744872006193 phosphate binding site A [ion binding]; other site 744872006194 DNA binding site [nucleotide binding] 744872006195 metal binding site A [ion binding]; metal-binding site 744872006196 putative AP binding site [nucleotide binding]; other site 744872006197 putative metal binding site B [ion binding]; other site 744872006198 phosphate binding site B [ion binding]; other site 744872006199 Rhomboid family; Region: Rhomboid; cl11446 744872006200 Predicted transcriptional regulator [Transcription]; Region: COG4189 744872006201 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 744872006202 putative DNA binding site [nucleotide binding]; other site 744872006203 putative Zn2+ binding site [ion binding]; other site 744872006204 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 744872006205 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 744872006206 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 744872006207 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 744872006208 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 744872006209 HlyD family secretion protein; Region: HlyD_3; pfam13437 744872006210 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 744872006211 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 744872006212 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 744872006213 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 744872006214 RNA binding site [nucleotide binding]; other site 744872006215 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 744872006216 RNA binding site [nucleotide binding]; other site 744872006217 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 744872006218 RNA binding site [nucleotide binding]; other site 744872006219 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 744872006220 RNA binding site [nucleotide binding]; other site 744872006221 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 744872006222 GAF domain; Region: GAF_2; pfam13185 744872006223 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 744872006224 Domain of unknown function DUF20; Region: UPF0118; pfam01594 744872006225 Predicted solute binding protein [General function prediction only]; Region: COG3889 744872006226 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 744872006227 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 744872006228 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872006229 dimer interface [polypeptide binding]; other site 744872006230 conserved gate region; other site 744872006231 ABC-ATPase subunit interface; other site 744872006232 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 744872006233 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872006234 dimer interface [polypeptide binding]; other site 744872006235 conserved gate region; other site 744872006236 putative PBP binding loops; other site 744872006237 ABC-ATPase subunit interface; other site 744872006238 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 744872006239 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 744872006240 Walker A/P-loop; other site 744872006241 ATP binding site [chemical binding]; other site 744872006242 Q-loop/lid; other site 744872006243 ABC transporter signature motif; other site 744872006244 Walker B; other site 744872006245 D-loop; other site 744872006246 H-loop/switch region; other site 744872006247 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 744872006248 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 744872006249 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 744872006250 Walker A/P-loop; other site 744872006251 ATP binding site [chemical binding]; other site 744872006252 Q-loop/lid; other site 744872006253 ABC transporter signature motif; other site 744872006254 Walker B; other site 744872006255 D-loop; other site 744872006256 H-loop/switch region; other site 744872006257 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 744872006258 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 744872006259 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 744872006260 dimer interface [polypeptide binding]; other site 744872006261 active site 744872006262 CoA binding pocket [chemical binding]; other site 744872006263 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 744872006264 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 744872006265 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 744872006266 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 744872006267 NAD(P) binding site [chemical binding]; other site 744872006268 homotetramer interface [polypeptide binding]; other site 744872006269 homodimer interface [polypeptide binding]; other site 744872006270 active site 744872006271 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 744872006272 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 744872006273 dimer interface [polypeptide binding]; other site 744872006274 active site 744872006275 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 744872006276 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 744872006277 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 744872006278 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 744872006279 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 744872006280 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 744872006281 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 744872006282 carboxyltransferase (CT) interaction site; other site 744872006283 biotinylation site [posttranslational modification]; other site 744872006284 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 744872006285 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 744872006286 ATP-grasp domain; Region: ATP-grasp_4; cl17255 744872006287 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 744872006288 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 744872006289 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 744872006290 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 744872006291 putative active site [active] 744872006292 putative metal binding site [ion binding]; other site 744872006293 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 744872006294 Cation efflux family; Region: Cation_efflux; cl00316 744872006295 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 744872006296 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 744872006297 glutaminase active site [active] 744872006298 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 744872006299 dimer interface [polypeptide binding]; other site 744872006300 active site 744872006301 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 744872006302 dimer interface [polypeptide binding]; other site 744872006303 active site 744872006304 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 744872006305 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 744872006306 dimer interface [polypeptide binding]; other site 744872006307 ssDNA binding site [nucleotide binding]; other site 744872006308 tetramer (dimer of dimers) interface [polypeptide binding]; other site 744872006309 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 744872006310 Peptidase family U32; Region: Peptidase_U32; pfam01136 744872006311 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 744872006312 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 744872006313 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 744872006314 catalytic residues [active] 744872006315 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 744872006316 Predicted secreted protein [Function unknown]; Region: COG5497 744872006317 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 744872006318 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 744872006319 binding surface 744872006320 TPR motif; other site 744872006321 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 744872006322 Protease prsW family; Region: PrsW-protease; pfam13367 744872006323 shikimate kinase; Reviewed; Region: aroK; PRK00131 744872006324 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 744872006325 ADP binding site [chemical binding]; other site 744872006326 magnesium binding site [ion binding]; other site 744872006327 putative shikimate binding site; other site 744872006328 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 744872006329 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872006330 active site 744872006331 phosphorylation site [posttranslational modification] 744872006332 intermolecular recognition site; other site 744872006333 dimerization interface [polypeptide binding]; other site 744872006334 PAS fold; Region: PAS; pfam00989 744872006335 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 744872006336 putative active site [active] 744872006337 heme pocket [chemical binding]; other site 744872006338 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 744872006339 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872006340 metal binding site [ion binding]; metal-binding site 744872006341 active site 744872006342 I-site; other site 744872006343 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 744872006344 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 744872006345 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 744872006346 6-phosphofructokinase; Provisional; Region: PRK03202 744872006347 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 744872006348 active site 744872006349 ADP/pyrophosphate binding site [chemical binding]; other site 744872006350 dimerization interface [polypeptide binding]; other site 744872006351 allosteric effector site; other site 744872006352 fructose-1,6-bisphosphate binding site; other site 744872006353 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 744872006354 alpha-glucosidase; Provisional; Region: PRK10426 744872006355 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 744872006356 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 744872006357 putative active site [active] 744872006358 putative catalytic site [active] 744872006359 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 744872006360 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 744872006361 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 744872006362 trimer interface [polypeptide binding]; other site 744872006363 substrate binding site [chemical binding]; other site 744872006364 hexamer (dimer of trimers) interface [polypeptide binding]; other site 744872006365 Mn binding site [ion binding]; other site 744872006366 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872006367 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872006368 dimer interface [polypeptide binding]; other site 744872006369 conserved gate region; other site 744872006370 ABC-ATPase subunit interface; other site 744872006371 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872006372 dimer interface [polypeptide binding]; other site 744872006373 conserved gate region; other site 744872006374 putative PBP binding loops; other site 744872006375 ABC-ATPase subunit interface; other site 744872006376 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872006377 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872006378 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 744872006379 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 744872006380 nucleotide binding site [chemical binding]; other site 744872006381 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 744872006382 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 744872006383 putative ATP binding site [chemical binding]; other site 744872006384 putative substrate interface [chemical binding]; other site 744872006385 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 744872006386 Protein of unknown function (DUF499); Region: DUF499; pfam04465 744872006387 Fn3 associated; Region: Fn3_assoc; pfam13287 744872006388 Protein of unknown function (DUF3780); Region: DUF3780; pfam12635 744872006389 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872006390 Walker A/P-loop; other site 744872006391 ATP binding site [chemical binding]; other site 744872006392 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872006393 AAA domain; Region: AAA_21; pfam13304 744872006394 Walker B; other site 744872006395 D-loop; other site 744872006396 H-loop/switch region; other site 744872006397 Transposase domain (DUF772); Region: DUF772; pfam05598 744872006398 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872006399 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 744872006400 PLD-like domain; Region: PLDc_2; pfam13091 744872006401 putative active site [active] 744872006402 catalytic site [active] 744872006403 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 744872006404 ATP binding site [chemical binding]; other site 744872006405 putative Mg++ binding site [ion binding]; other site 744872006406 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 744872006407 nucleotide binding region [chemical binding]; other site 744872006408 ATP-binding site [chemical binding]; other site 744872006409 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 744872006410 non-specific DNA binding site [nucleotide binding]; other site 744872006411 salt bridge; other site 744872006412 sequence-specific DNA binding site [nucleotide binding]; other site 744872006413 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 744872006414 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 744872006415 putative active site [active] 744872006416 transketolase; Reviewed; Region: PRK05899 744872006417 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 744872006418 TPP-binding site [chemical binding]; other site 744872006419 dimer interface [polypeptide binding]; other site 744872006420 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 744872006421 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 744872006422 PYR/PP interface [polypeptide binding]; other site 744872006423 dimer interface [polypeptide binding]; other site 744872006424 TPP binding site [chemical binding]; other site 744872006425 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 744872006426 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 744872006427 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 744872006428 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 744872006429 active site 744872006430 NAD binding site [chemical binding]; other site 744872006431 metal binding site [ion binding]; metal-binding site 744872006432 Predicted permeases [General function prediction only]; Region: COG0730 744872006433 Rrf2 family protein; Region: rrf2_super; TIGR00738 744872006434 Transcriptional regulator; Region: Rrf2; pfam02082 744872006435 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 744872006436 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 744872006437 dimer interface [polypeptide binding]; other site 744872006438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872006439 catalytic residue [active] 744872006440 PAP2_like_3 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria and archaea, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_3; cd03393 744872006441 active site 744872006442 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 744872006443 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872006444 Zn2+ binding site [ion binding]; other site 744872006445 Mg2+ binding site [ion binding]; other site 744872006446 UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: GalU; COG1210 744872006447 active site 744872006448 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 744872006449 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 744872006450 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 744872006451 GTP/Mg2+ binding site [chemical binding]; other site 744872006452 G5 box; other site 744872006453 trmE is a tRNA modification GTPase; Region: trmE; cd04164 744872006454 G1 box; other site 744872006455 G1 box; other site 744872006456 GTP/Mg2+ binding site [chemical binding]; other site 744872006457 Switch I region; other site 744872006458 Switch I region; other site 744872006459 G2 box; other site 744872006460 G2 box; other site 744872006461 Switch II region; other site 744872006462 G3 box; other site 744872006463 G3 box; other site 744872006464 Switch II region; other site 744872006465 G4 box; other site 744872006466 G5 box; other site 744872006467 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 744872006468 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 744872006469 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 744872006470 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 744872006471 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 744872006472 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 744872006473 catalytic residues [active] 744872006474 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 744872006475 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 744872006476 peptide binding site [polypeptide binding]; other site 744872006477 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 744872006478 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 744872006479 substrate binding site; other site 744872006480 dimer interface; other site 744872006481 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 744872006482 homotrimer interaction site [polypeptide binding]; other site 744872006483 zinc binding site [ion binding]; other site 744872006484 CDP-binding sites; other site 744872006485 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 744872006486 endonuclease III; Region: ENDO3c; smart00478 744872006487 minor groove reading motif; other site 744872006488 helix-hairpin-helix signature motif; other site 744872006489 substrate binding pocket [chemical binding]; other site 744872006490 active site 744872006491 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 744872006492 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 744872006493 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 744872006494 Paired Box domain; Region: PAX; smart00351 744872006495 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 744872006496 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 744872006497 motif II; other site 744872006498 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 744872006499 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 744872006500 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 744872006501 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 744872006502 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 744872006503 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 744872006504 binding surface 744872006505 TPR motif; other site 744872006506 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872006507 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 744872006508 DNA binding site [nucleotide binding] 744872006509 domain linker motif; other site 744872006510 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 744872006511 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 744872006512 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 744872006513 active site 744872006514 catalytic site [active] 744872006515 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872006516 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872006517 dimer interface [polypeptide binding]; other site 744872006518 conserved gate region; other site 744872006519 putative PBP binding loops; other site 744872006520 ABC-ATPase subunit interface; other site 744872006521 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 744872006522 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872006523 dimer interface [polypeptide binding]; other site 744872006524 conserved gate region; other site 744872006525 putative PBP binding loops; other site 744872006526 ABC-ATPase subunit interface; other site 744872006527 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872006528 Transposase, Mutator family; Region: Transposase_mut; pfam00872 744872006529 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 744872006530 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872006531 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872006532 dimer interface [polypeptide binding]; other site 744872006533 putative CheW interface [polypeptide binding]; other site 744872006534 GTPase RsgA; Reviewed; Region: PRK01889 744872006535 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 744872006536 GTPase/Zn-binding domain interface [polypeptide binding]; other site 744872006537 GTP/Mg2+ binding site [chemical binding]; other site 744872006538 G4 box; other site 744872006539 G5 box; other site 744872006540 G1 box; other site 744872006541 Switch I region; other site 744872006542 G2 box; other site 744872006543 G3 box; other site 744872006544 Switch II region; other site 744872006545 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 744872006546 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872006547 active site 744872006548 phosphorylation site [posttranslational modification] 744872006549 intermolecular recognition site; other site 744872006550 dimerization interface [polypeptide binding]; other site 744872006551 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 744872006552 DNA binding residues [nucleotide binding] 744872006553 dimerization interface [polypeptide binding]; other site 744872006554 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 744872006555 GAF domain; Region: GAF_3; pfam13492 744872006556 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 744872006557 GAF domain; Region: GAF; pfam01590 744872006558 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 744872006559 Histidine kinase; Region: HisKA_3; pfam07730 744872006560 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872006561 ATP binding site [chemical binding]; other site 744872006562 Mg2+ binding site [ion binding]; other site 744872006563 G-X-G motif; other site 744872006564 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 744872006565 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872006566 Walker A/P-loop; other site 744872006567 ATP binding site [chemical binding]; other site 744872006568 Q-loop/lid; other site 744872006569 ABC transporter signature motif; other site 744872006570 Walker B; other site 744872006571 D-loop; other site 744872006572 H-loop/switch region; other site 744872006573 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 744872006574 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 744872006575 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 744872006576 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 744872006577 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 744872006578 putative substrate translocation pore; other site 744872006579 Major Facilitator Superfamily; Region: MFS_1; pfam07690 744872006580 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 744872006581 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 744872006582 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 744872006583 PAS domain; Region: PAS_9; pfam13426 744872006584 putative active site [active] 744872006585 heme pocket [chemical binding]; other site 744872006586 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 744872006587 PAS domain; Region: PAS_9; pfam13426 744872006588 putative active site [active] 744872006589 heme pocket [chemical binding]; other site 744872006590 PAS domain; Region: PAS_9; pfam13426 744872006591 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 744872006592 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 744872006593 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 744872006594 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872006595 Zn2+ binding site [ion binding]; other site 744872006596 Mg2+ binding site [ion binding]; other site 744872006597 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 744872006598 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 744872006599 Walker A/P-loop; other site 744872006600 ATP binding site [chemical binding]; other site 744872006601 Q-loop/lid; other site 744872006602 ABC transporter signature motif; other site 744872006603 Walker B; other site 744872006604 D-loop; other site 744872006605 H-loop/switch region; other site 744872006606 TOBE domain; Region: TOBE; cl01440 744872006607 TOBE domain; Region: TOBE_2; pfam08402 744872006608 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 744872006609 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872006610 putative PBP binding loops; other site 744872006611 dimer interface [polypeptide binding]; other site 744872006612 ABC-ATPase subunit interface; other site 744872006613 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 744872006614 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872006615 dimer interface [polypeptide binding]; other site 744872006616 conserved gate region; other site 744872006617 putative PBP binding loops; other site 744872006618 ABC-ATPase subunit interface; other site 744872006619 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 744872006620 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 744872006621 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 744872006622 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 744872006623 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 744872006624 transmembrane helices; other site 744872006625 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 744872006626 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872006627 active site 744872006628 phosphorylation site [posttranslational modification] 744872006629 intermolecular recognition site; other site 744872006630 dimerization interface [polypeptide binding]; other site 744872006631 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872006632 Cache domain; Region: Cache_1; pfam02743 744872006633 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872006634 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 744872006635 dimerization interface [polypeptide binding]; other site 744872006636 Histidine kinase; Region: His_kinase; pfam06580 744872006637 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872006638 ATP binding site [chemical binding]; other site 744872006639 Mg2+ binding site [ion binding]; other site 744872006640 G-X-G motif; other site 744872006641 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 744872006642 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 744872006643 putative ligand binding site [chemical binding]; other site 744872006644 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 744872006645 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 744872006646 Walker A/P-loop; other site 744872006647 ATP binding site [chemical binding]; other site 744872006648 Q-loop/lid; other site 744872006649 ABC transporter signature motif; other site 744872006650 Walker B; other site 744872006651 D-loop; other site 744872006652 H-loop/switch region; other site 744872006653 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872006654 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872006655 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872006656 TM-ABC transporter signature motif; other site 744872006657 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 744872006658 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 744872006659 putative ligand binding site [chemical binding]; other site 744872006660 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 744872006661 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 744872006662 intersubunit interface [polypeptide binding]; other site 744872006663 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 744872006664 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 744872006665 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 744872006666 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 744872006667 ABC-ATPase subunit interface; other site 744872006668 dimer interface [polypeptide binding]; other site 744872006669 putative PBP binding regions; other site 744872006670 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 744872006671 metal binding site 2 [ion binding]; metal-binding site 744872006672 putative DNA binding helix; other site 744872006673 metal binding site 1 [ion binding]; metal-binding site 744872006674 dimer interface [polypeptide binding]; other site 744872006675 structural Zn2+ binding site [ion binding]; other site 744872006676 Sugar fermentation stimulation protein; Region: SfsA; cl00647 744872006677 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 744872006678 GIY-YIG motif/motif A; other site 744872006679 putative active site [active] 744872006680 putative metal binding site [ion binding]; other site 744872006681 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 744872006682 EamA-like transporter family; Region: EamA; pfam00892 744872006683 EamA-like transporter family; Region: EamA; pfam00892 744872006684 Putative motility protein; Region: YjfB_motility; pfam14070 744872006685 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 744872006686 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 744872006687 Uncharacterized conserved protein [Function unknown]; Region: COG2454 744872006688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 744872006689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 744872006690 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 744872006691 putative dimerization interface [polypeptide binding]; other site 744872006692 Predicted membrane protein [Function unknown]; Region: COG2855 744872006693 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 744872006694 Major Facilitator Superfamily; Region: MFS_1; pfam07690 744872006695 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 744872006696 Ligand Binding Site [chemical binding]; other site 744872006697 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 744872006698 Ligand Binding Site [chemical binding]; other site 744872006699 manganese transport protein MntH; Reviewed; Region: PRK00701 744872006700 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 744872006701 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 744872006702 active site 744872006703 phosphorylation site [posttranslational modification] 744872006704 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 744872006705 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 744872006706 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 744872006707 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 744872006708 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 744872006709 motif II; other site 744872006710 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 744872006711 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 744872006712 homotrimer interaction site [polypeptide binding]; other site 744872006713 putative active site [active] 744872006714 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 744872006715 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 744872006716 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 744872006717 putative transposase; Provisional; Region: PRK09857 744872006718 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 744872006719 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 744872006720 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 744872006721 Transposase domain (DUF772); Region: DUF772; pfam05598 744872006722 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872006723 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 744872006724 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 744872006725 Transposase; Region: HTH_Tnp_1; cl17663 744872006726 putative transposase OrfB; Reviewed; Region: PHA02517 744872006727 HTH-like domain; Region: HTH_21; pfam13276 744872006728 Integrase core domain; Region: rve; pfam00665 744872006729 Integrase core domain; Region: rve_3; pfam13683 744872006730 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 744872006731 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 744872006732 HlyD family secretion protein; Region: HlyD_3; pfam13437 744872006733 Transposase domain (DUF772); Region: DUF772; pfam05598 744872006734 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872006735 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 744872006736 Protein of unknown function (DUF523); Region: DUF523; pfam04463 744872006737 Uncharacterized conserved protein [Function unknown]; Region: COG3272 744872006738 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 744872006739 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 744872006740 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 744872006741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 744872006742 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 744872006743 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 744872006744 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 744872006745 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 744872006746 Cache domain; Region: Cache_1; pfam02743 744872006747 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 744872006748 dimerization interface [polypeptide binding]; other site 744872006749 Histidine kinase; Region: His_kinase; pfam06580 744872006750 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872006751 ATP binding site [chemical binding]; other site 744872006752 Mg2+ binding site [ion binding]; other site 744872006753 G-X-G motif; other site 744872006754 Response regulator receiver domain; Region: Response_reg; pfam00072 744872006755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872006756 active site 744872006757 phosphorylation site [posttranslational modification] 744872006758 intermolecular recognition site; other site 744872006759 dimerization interface [polypeptide binding]; other site 744872006760 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 744872006761 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872006762 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 744872006763 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 744872006764 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 744872006765 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 744872006766 putative ligand binding site [chemical binding]; other site 744872006767 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 744872006768 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 744872006769 putative ligand binding site [chemical binding]; other site 744872006770 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 744872006771 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872006772 Walker A/P-loop; other site 744872006773 ATP binding site [chemical binding]; other site 744872006774 Q-loop/lid; other site 744872006775 ABC transporter signature motif; other site 744872006776 Walker B; other site 744872006777 D-loop; other site 744872006778 H-loop/switch region; other site 744872006779 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872006780 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872006781 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872006782 TM-ABC transporter signature motif; other site 744872006783 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872006784 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872006785 TM-ABC transporter signature motif; other site 744872006786 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 744872006787 Melibiase; Region: Melibiase; pfam02065 744872006788 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872006789 PBP superfamily domain; Region: PBP_like_2; cl17296 744872006790 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872006791 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872006792 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872006793 dimer interface [polypeptide binding]; other site 744872006794 conserved gate region; other site 744872006795 putative PBP binding loops; other site 744872006796 ABC-ATPase subunit interface; other site 744872006797 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 744872006798 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872006799 dimer interface [polypeptide binding]; other site 744872006800 conserved gate region; other site 744872006801 putative PBP binding loops; other site 744872006802 ABC-ATPase subunit interface; other site 744872006803 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872006804 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 744872006805 DNA binding site [nucleotide binding] 744872006806 domain linker motif; other site 744872006807 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 744872006808 ligand binding site [chemical binding]; other site 744872006809 dimerization interface [polypeptide binding]; other site 744872006810 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 744872006811 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 744872006812 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 744872006813 hypothetical protein; Reviewed; Region: PRK09588 744872006814 Periplasmic binding protein-like domain; Region: Peripla_BP_3; pfam13377 744872006815 Transposase domain (DUF772); Region: DUF772; pfam05598 744872006816 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872006817 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 744872006818 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 744872006819 active site 744872006820 metal binding site [ion binding]; metal-binding site 744872006821 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 744872006822 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 744872006823 FtsX-like permease family; Region: FtsX; pfam02687 744872006824 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 744872006825 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 744872006826 FtsX-like permease family; Region: FtsX; pfam02687 744872006827 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 744872006828 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 744872006829 Walker A/P-loop; other site 744872006830 ATP binding site [chemical binding]; other site 744872006831 Q-loop/lid; other site 744872006832 ABC transporter signature motif; other site 744872006833 Walker B; other site 744872006834 D-loop; other site 744872006835 H-loop/switch region; other site 744872006836 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 744872006837 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 744872006838 Predicted transcriptional regulators [Transcription]; Region: COG1725 744872006839 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 744872006840 DNA-binding site [nucleotide binding]; DNA binding site 744872006841 L-fucose isomerase; Provisional; Region: fucI; PRK10991 744872006842 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 744872006843 hexamer (dimer of trimers) interface [polypeptide binding]; other site 744872006844 trimer interface [polypeptide binding]; other site 744872006845 substrate binding site [chemical binding]; other site 744872006846 Mn binding site [ion binding]; other site 744872006847 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872006848 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 744872006849 DNA binding site [nucleotide binding] 744872006850 domain linker motif; other site 744872006851 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 744872006852 dimerization interface [polypeptide binding]; other site 744872006853 ligand binding site [chemical binding]; other site 744872006854 Membrane transport protein; Region: Mem_trans; cl09117 744872006855 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 744872006856 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 744872006857 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 744872006858 putative NAD(P) binding site [chemical binding]; other site 744872006859 catalytic Zn binding site [ion binding]; other site 744872006860 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 744872006861 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 744872006862 putative substrate binding site [chemical binding]; other site 744872006863 putative ATP binding site [chemical binding]; other site 744872006864 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 744872006865 dimerization domain swap beta strand [polypeptide binding]; other site 744872006866 regulatory protein interface [polypeptide binding]; other site 744872006867 active site 744872006868 regulatory phosphorylation site [posttranslational modification]; other site 744872006869 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 744872006870 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 744872006871 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 744872006872 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 744872006873 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 744872006874 active site 744872006875 phosphorylation site [posttranslational modification] 744872006876 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 744872006877 HTH domain; Region: HTH_11; pfam08279 744872006878 HTH domain; Region: HTH_11; pfam08279 744872006879 PRD domain; Region: PRD; pfam00874 744872006880 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 744872006881 active site 744872006882 P-loop; other site 744872006883 phosphorylation site [posttranslational modification] 744872006884 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; cl00163 744872006885 active site 744872006886 phosphorylation site [posttranslational modification] 744872006887 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 744872006888 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 744872006889 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 744872006890 active site 744872006891 P-loop; other site 744872006892 phosphorylation site [posttranslational modification] 744872006893 Methyltransferase domain; Region: Methyltransf_31; pfam13847 744872006894 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 744872006895 S-adenosylmethionine binding site [chemical binding]; other site 744872006896 putative hydrolase; Validated; Region: PRK09248 744872006897 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 744872006898 active site 744872006899 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 744872006900 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 744872006901 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 744872006902 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 744872006903 putative substrate binding site [chemical binding]; other site 744872006904 putative ATP binding site [chemical binding]; other site 744872006905 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 744872006906 active site clefts [active] 744872006907 zinc binding site [ion binding]; other site 744872006908 dimer interface [polypeptide binding]; other site 744872006909 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 744872006910 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 744872006911 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 744872006912 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 744872006913 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 744872006914 dimerization interface [polypeptide binding]; other site 744872006915 putative DNA binding site [nucleotide binding]; other site 744872006916 putative Zn2+ binding site [ion binding]; other site 744872006917 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 744872006918 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 744872006919 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 744872006920 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 744872006921 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 744872006922 putative acyl-acceptor binding pocket; other site 744872006923 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 744872006924 putative active site [active] 744872006925 putative CoA binding site [chemical binding]; other site 744872006926 nudix motif; other site 744872006927 metal binding site [ion binding]; metal-binding site 744872006928 Transposase domain (DUF772); Region: DUF772; pfam05598 744872006929 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872006930 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 744872006931 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 744872006932 non-specific DNA binding site [nucleotide binding]; other site 744872006933 salt bridge; other site 744872006934 sequence-specific DNA binding site [nucleotide binding]; other site 744872006935 putative transporter; Provisional; Region: PRK11660 744872006936 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 744872006937 Sulfate transporter family; Region: Sulfate_transp; pfam00916 744872006938 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 744872006939 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 744872006940 putative active site [active] 744872006941 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 744872006942 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 744872006943 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 744872006944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872006945 Walker A/P-loop; other site 744872006946 ATP binding site [chemical binding]; other site 744872006947 Q-loop/lid; other site 744872006948 ABC transporter signature motif; other site 744872006949 Walker B; other site 744872006950 D-loop; other site 744872006951 H-loop/switch region; other site 744872006952 Flavodoxin domain; Region: Flavodoxin_5; cl17428 744872006953 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 744872006954 catalytic tetrad [active] 744872006955 Transcriptional regulators [Transcription]; Region: MarR; COG1846 744872006956 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 744872006957 putative DNA binding site [nucleotide binding]; other site 744872006958 dimerization interface [polypeptide binding]; other site 744872006959 putative Zn2+ binding site [ion binding]; other site 744872006960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 744872006961 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 744872006962 Histidine kinase; Region: HisKA_3; pfam07730 744872006963 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872006964 ATP binding site [chemical binding]; other site 744872006965 Mg2+ binding site [ion binding]; other site 744872006966 G-X-G motif; other site 744872006967 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 744872006968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872006969 active site 744872006970 phosphorylation site [posttranslational modification] 744872006971 intermolecular recognition site; other site 744872006972 dimerization interface [polypeptide binding]; other site 744872006973 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 744872006974 DNA binding residues [nucleotide binding] 744872006975 dimerization interface [polypeptide binding]; other site 744872006976 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872006977 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872006978 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 744872006979 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872006980 dimer interface [polypeptide binding]; other site 744872006981 conserved gate region; other site 744872006982 putative PBP binding loops; other site 744872006983 ABC-ATPase subunit interface; other site 744872006984 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872006985 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872006986 dimer interface [polypeptide binding]; other site 744872006987 conserved gate region; other site 744872006988 putative PBP binding loops; other site 744872006989 ABC-ATPase subunit interface; other site 744872006990 DRTGG domain; Region: DRTGG; pfam07085 744872006991 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 744872006992 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 744872006993 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 744872006994 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 744872006995 dimer interface [polypeptide binding]; other site 744872006996 catalytic triad [active] 744872006997 peroxidatic and resolving cysteines [active] 744872006998 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 744872006999 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 744872007000 FeS/SAM binding site; other site 744872007001 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 744872007002 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 744872007003 substrate binding site [chemical binding]; other site 744872007004 active site 744872007005 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 744872007006 ligand binding site [chemical binding]; other site 744872007007 Carboxylesterase family; Region: COesterase; pfam00135 744872007008 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 744872007009 substrate binding pocket [chemical binding]; other site 744872007010 catalytic triad [active] 744872007011 lycopene cyclase domain; Region: CarR_dom_SF; TIGR03462 744872007012 lycopene cyclase domain; Region: CarR_dom_SF; TIGR03462 744872007013 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 744872007014 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 744872007015 Coenzyme A binding pocket [chemical binding]; other site 744872007016 Protein of unknown function DUF86; Region: DUF86; pfam01934 744872007017 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 744872007018 active site 744872007019 NTP binding site [chemical binding]; other site 744872007020 metal binding triad [ion binding]; metal-binding site 744872007021 antibiotic binding site [chemical binding]; other site 744872007022 Alpha-kinase family; Region: Alpha_kinase; cl03728 744872007023 Major Facilitator Superfamily; Region: MFS_1; pfam07690 744872007024 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 744872007025 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 744872007026 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 744872007027 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 744872007028 Tetramer interface [polypeptide binding]; other site 744872007029 active site 744872007030 FMN-binding site [chemical binding]; other site 744872007031 MoxR-like ATPases [General function prediction only]; Region: COG0714 744872007032 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 744872007033 Walker A motif; other site 744872007034 ATP binding site [chemical binding]; other site 744872007035 Walker B motif; other site 744872007036 arginine finger; other site 744872007037 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 744872007038 Protein of unknown function DUF58; Region: DUF58; pfam01882 744872007039 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 744872007040 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 744872007041 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 744872007042 Protein of unknown function DUF58; Region: DUF58; pfam01882 744872007043 MoxR-like ATPases [General function prediction only]; Region: COG0714 744872007044 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 744872007045 Walker A motif; other site 744872007046 ATP binding site [chemical binding]; other site 744872007047 Walker B motif; other site 744872007048 arginine finger; other site 744872007049 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872007050 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872007051 TM-ABC transporter signature motif; other site 744872007052 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872007053 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872007054 TM-ABC transporter signature motif; other site 744872007055 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 744872007056 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 744872007057 Walker A/P-loop; other site 744872007058 ATP binding site [chemical binding]; other site 744872007059 Q-loop/lid; other site 744872007060 ABC transporter signature motif; other site 744872007061 Walker B; other site 744872007062 D-loop; other site 744872007063 H-loop/switch region; other site 744872007064 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872007065 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 744872007066 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 744872007067 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 744872007068 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 744872007069 putative ligand binding site [chemical binding]; other site 744872007070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872007071 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 744872007072 dimerization interface [polypeptide binding]; other site 744872007073 Histidine kinase; Region: His_kinase; pfam06580 744872007074 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872007075 ATP binding site [chemical binding]; other site 744872007076 Mg2+ binding site [ion binding]; other site 744872007077 G-X-G motif; other site 744872007078 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 744872007079 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872007080 active site 744872007081 phosphorylation site [posttranslational modification] 744872007082 intermolecular recognition site; other site 744872007083 dimerization interface [polypeptide binding]; other site 744872007084 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872007085 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872007086 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 744872007087 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 744872007088 acyl-activating enzyme (AAE) consensus motif; other site 744872007089 AMP binding site [chemical binding]; other site 744872007090 active site 744872007091 CoA binding site [chemical binding]; other site 744872007092 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 744872007093 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 744872007094 non-specific DNA binding site [nucleotide binding]; other site 744872007095 salt bridge; other site 744872007096 sequence-specific DNA binding site [nucleotide binding]; other site 744872007097 Cupin domain; Region: Cupin_2; pfam07883 744872007098 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 744872007099 tetramer (dimer of dimers) interface [polypeptide binding]; other site 744872007100 active site 744872007101 dimer interface [polypeptide binding]; other site 744872007102 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 744872007103 PAS domain; Region: PAS_9; pfam13426 744872007104 putative active site [active] 744872007105 heme pocket [chemical binding]; other site 744872007106 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 744872007107 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 744872007108 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase; Region: PLN02520 744872007109 active site 744872007110 catalytic residue [active] 744872007111 dimer interface [polypeptide binding]; other site 744872007112 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 744872007113 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 744872007114 shikimate binding site; other site 744872007115 NAD(P) binding site [chemical binding]; other site 744872007116 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 744872007117 AMP-binding enzyme; Region: AMP-binding; pfam00501 744872007118 acyl-activating enzyme (AAE) consensus motif; other site 744872007119 putative AMP binding site [chemical binding]; other site 744872007120 putative active site [active] 744872007121 putative CoA binding site [chemical binding]; other site 744872007122 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 744872007123 active site 744872007124 nucleotide binding site [chemical binding]; other site 744872007125 HIGH motif; other site 744872007126 KMSKS motif; other site 744872007127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 744872007128 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 744872007129 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 744872007130 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 744872007131 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 744872007132 putative active site [active] 744872007133 substrate binding site [chemical binding]; other site 744872007134 putative cosubstrate binding site; other site 744872007135 catalytic site [active] 744872007136 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 744872007137 substrate binding site [chemical binding]; other site 744872007138 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 744872007139 active site 744872007140 catalytic residues [active] 744872007141 metal binding site [ion binding]; metal-binding site 744872007142 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 744872007143 Transglycosylase; Region: Transgly; pfam00912 744872007144 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 744872007145 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 744872007146 MG2 domain; Region: A2M_N; pfam01835 744872007147 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 744872007148 Alpha-2-macroglobulin family; Region: A2M; pfam00207 744872007149 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 744872007150 surface patch; other site 744872007151 thioester region; other site 744872007152 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 744872007153 Two component regulator propeller; Region: Reg_prop; pfam07494 744872007154 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 744872007155 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 744872007156 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872007157 metal binding site [ion binding]; metal-binding site 744872007158 active site 744872007159 I-site; other site 744872007160 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 744872007161 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872007162 active site 744872007163 phosphorylation site [posttranslational modification] 744872007164 intermolecular recognition site; other site 744872007165 dimerization interface [polypeptide binding]; other site 744872007166 CheB methylesterase; Region: CheB_methylest; pfam01339 744872007167 CheD chemotactic sensory transduction; Region: CheD; cl00810 744872007168 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 744872007169 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 744872007170 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 744872007171 S-adenosylmethionine binding site [chemical binding]; other site 744872007172 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 744872007173 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872007174 dimer interface [polypeptide binding]; other site 744872007175 putative CheW interface [polypeptide binding]; other site 744872007176 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 744872007177 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 744872007178 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872007179 active site 744872007180 phosphorylation site [posttranslational modification] 744872007181 intermolecular recognition site; other site 744872007182 dimerization interface [polypeptide binding]; other site 744872007183 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 744872007184 putative binding surface; other site 744872007185 active site 744872007186 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 744872007187 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 744872007188 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872007189 ATP binding site [chemical binding]; other site 744872007190 Mg2+ binding site [ion binding]; other site 744872007191 G-X-G motif; other site 744872007192 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 744872007193 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872007194 dimer interface [polypeptide binding]; other site 744872007195 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 744872007196 putative CheW interface [polypeptide binding]; other site 744872007197 Response regulator receiver domain; Region: Response_reg; pfam00072 744872007198 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872007199 active site 744872007200 phosphorylation site [posttranslational modification] 744872007201 intermolecular recognition site; other site 744872007202 dimerization interface [polypeptide binding]; other site 744872007203 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 744872007204 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 744872007205 putative NAD(P) binding site [chemical binding]; other site 744872007206 catalytic Zn binding site [ion binding]; other site 744872007207 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 744872007208 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 744872007209 active site 744872007210 catalytic tetrad [active] 744872007211 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 744872007212 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872007213 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 744872007214 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872007215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872007216 Walker A/P-loop; other site 744872007217 ATP binding site [chemical binding]; other site 744872007218 Q-loop/lid; other site 744872007219 ABC transporter signature motif; other site 744872007220 Walker B; other site 744872007221 D-loop; other site 744872007222 H-loop/switch region; other site 744872007223 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872007224 Walker A/P-loop; other site 744872007225 ATP binding site [chemical binding]; other site 744872007226 Q-loop/lid; other site 744872007227 ABC transporter signature motif; other site 744872007228 Walker B; other site 744872007229 D-loop; other site 744872007230 H-loop/switch region; other site 744872007231 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 744872007232 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872007233 TPR motif; other site 744872007234 binding surface 744872007235 GGGtGRT protein; Region: GGGtGRT; pfam14057 744872007236 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 744872007237 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 744872007238 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 744872007239 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 744872007240 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 744872007241 lipoyl attachment site [posttranslational modification]; other site 744872007242 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 744872007243 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 744872007244 tetramer interface [polypeptide binding]; other site 744872007245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872007246 catalytic residue [active] 744872007247 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 744872007248 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 744872007249 catalytic residue [active] 744872007250 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 744872007251 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 744872007252 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 744872007253 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 744872007254 DNA binding site [nucleotide binding] 744872007255 active site 744872007256 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 744872007257 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 744872007258 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 744872007259 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 744872007260 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 744872007261 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 744872007262 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 744872007263 ligand binding site [chemical binding]; other site 744872007264 Methyltransferase domain; Region: Methyltransf_31; pfam13847 744872007265 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 744872007266 S-adenosylmethionine binding site [chemical binding]; other site 744872007267 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 744872007268 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 744872007269 Substrate binding site; other site 744872007270 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 744872007271 propionate/acetate kinase; Provisional; Region: PRK12379 744872007272 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 744872007273 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 744872007274 substrate binding site [chemical binding]; other site 744872007275 ATP binding site [chemical binding]; other site 744872007276 DJ-1 family protein; Region: not_thiJ; TIGR01383 744872007277 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 744872007278 conserved cys residue [active] 744872007279 Response regulator receiver domain; Region: Response_reg; pfam00072 744872007280 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872007281 active site 744872007282 phosphorylation site [posttranslational modification] 744872007283 intermolecular recognition site; other site 744872007284 dimerization interface [polypeptide binding]; other site 744872007285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872007286 Response regulator receiver domain; Region: Response_reg; pfam00072 744872007287 active site 744872007288 phosphorylation site [posttranslational modification] 744872007289 intermolecular recognition site; other site 744872007290 dimerization interface [polypeptide binding]; other site 744872007291 PAS domain S-box; Region: sensory_box; TIGR00229 744872007292 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872007293 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 744872007294 dimer interface [polypeptide binding]; other site 744872007295 phosphorylation site [posttranslational modification] 744872007296 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872007297 ATP binding site [chemical binding]; other site 744872007298 Mg2+ binding site [ion binding]; other site 744872007299 G-X-G motif; other site 744872007300 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 744872007301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872007302 active site 744872007303 phosphorylation site [posttranslational modification] 744872007304 intermolecular recognition site; other site 744872007305 dimerization interface [polypeptide binding]; other site 744872007306 Response regulator receiver domain; Region: Response_reg; pfam00072 744872007307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872007308 active site 744872007309 phosphorylation site [posttranslational modification] 744872007310 intermolecular recognition site; other site 744872007311 dimerization interface [polypeptide binding]; other site 744872007312 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 744872007313 putative binding surface; other site 744872007314 active site 744872007315 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 744872007316 histidinol-phosphatase; Provisional; Region: PRK07328 744872007317 active site 744872007318 dimer interface [polypeptide binding]; other site 744872007319 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 744872007320 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 744872007321 rRNA binding site [nucleotide binding]; other site 744872007322 predicted 30S ribosome binding site; other site 744872007323 Smr domain; Region: Smr; pfam01713 744872007324 potential frameshift: common BLAST hit: gi|328947151|ref|YP_004364488.1| von Willebrand factor type A 744872007325 Tetratricopeptide repeat; Region: TPR_12; pfam13424 744872007326 binding surface 744872007327 TPR motif; other site 744872007328 Tetratricopeptide repeat; Region: TPR_1; pfam00515 744872007329 TPR repeat; Region: TPR_11; pfam13414 744872007330 von Willebrand factor type A domain; Region: VWA_2; pfam13519 744872007331 metal ion-dependent adhesion site (MIDAS); other site 744872007332 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 744872007333 metal ion-dependent adhesion site (MIDAS); other site 744872007334 Protein of unknown function DUF58; Region: DUF58; pfam01882 744872007335 MoxR-like ATPases [General function prediction only]; Region: COG0714 744872007336 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 744872007337 Walker A motif; other site 744872007338 ATP binding site [chemical binding]; other site 744872007339 Walker B motif; other site 744872007340 arginine finger; other site 744872007341 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 744872007342 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 744872007343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872007344 homodimer interface [polypeptide binding]; other site 744872007345 catalytic residue [active] 744872007346 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872007347 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 744872007348 active site 744872007349 substrate-binding site [chemical binding]; other site 744872007350 metal-binding site [ion binding] 744872007351 GTP binding site [chemical binding]; other site 744872007352 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 744872007353 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 744872007354 ligand binding site [chemical binding]; other site 744872007355 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 744872007356 GTP-binding protein YchF; Reviewed; Region: PRK09601 744872007357 YchF GTPase; Region: YchF; cd01900 744872007358 G1 box; other site 744872007359 GTP/Mg2+ binding site [chemical binding]; other site 744872007360 Switch I region; other site 744872007361 G2 box; other site 744872007362 Switch II region; other site 744872007363 G3 box; other site 744872007364 G4 box; other site 744872007365 G5 box; other site 744872007366 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 744872007367 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 744872007368 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 744872007369 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 744872007370 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 744872007371 homodimer interface [polypeptide binding]; other site 744872007372 substrate-cofactor binding pocket; other site 744872007373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872007374 catalytic residue [active] 744872007375 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 744872007376 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 744872007377 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 744872007378 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 744872007379 active site 744872007380 dimer interface [polypeptide binding]; other site 744872007381 motif 1; other site 744872007382 motif 2; other site 744872007383 motif 3; other site 744872007384 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 744872007385 anticodon binding site; other site 744872007386 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 744872007387 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 744872007388 YcfA-like protein; Region: YcfA; pfam07927 744872007389 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 744872007390 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 744872007391 dimerization interface [polypeptide binding]; other site 744872007392 ATP binding site [chemical binding]; other site 744872007393 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 744872007394 dimerization interface [polypeptide binding]; other site 744872007395 ATP binding site [chemical binding]; other site 744872007396 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 744872007397 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 744872007398 putative active site [active] 744872007399 catalytic triad [active] 744872007400 Cache domain; Region: Cache_1; pfam02743 744872007401 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 744872007402 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872007403 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872007404 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872007405 dimer interface [polypeptide binding]; other site 744872007406 putative CheW interface [polypeptide binding]; other site 744872007407 NAD synthetase; Provisional; Region: PRK13981 744872007408 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 744872007409 multimer interface [polypeptide binding]; other site 744872007410 active site 744872007411 catalytic triad [active] 744872007412 protein interface 1 [polypeptide binding]; other site 744872007413 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 744872007414 homodimer interface [polypeptide binding]; other site 744872007415 NAD binding pocket [chemical binding]; other site 744872007416 ATP binding pocket [chemical binding]; other site 744872007417 Mg binding site [ion binding]; other site 744872007418 active-site loop [active] 744872007419 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 744872007420 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 744872007421 putative active site [active] 744872007422 putative metal binding site [ion binding]; other site 744872007423 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 744872007424 PAS domain; Region: PAS_9; pfam13426 744872007425 putative active site [active] 744872007426 heme pocket [chemical binding]; other site 744872007427 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 744872007428 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 744872007429 putative active site [active] 744872007430 heme pocket [chemical binding]; other site 744872007431 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 744872007432 dimer interface [polypeptide binding]; other site 744872007433 phosphorylation site [posttranslational modification] 744872007434 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872007435 ATP binding site [chemical binding]; other site 744872007436 Mg2+ binding site [ion binding]; other site 744872007437 G-X-G motif; other site 744872007438 Response regulator receiver domain; Region: Response_reg; pfam00072 744872007439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872007440 active site 744872007441 phosphorylation site [posttranslational modification] 744872007442 intermolecular recognition site; other site 744872007443 dimerization interface [polypeptide binding]; other site 744872007444 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 744872007445 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 744872007446 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 744872007447 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 744872007448 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 744872007449 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 744872007450 RNA binding site [nucleotide binding]; other site 744872007451 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 744872007452 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 744872007453 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 744872007454 Coenzyme A binding pocket [chemical binding]; other site 744872007455 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 744872007456 4Fe-4S binding domain; Region: Fer4; pfam00037 744872007457 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 744872007458 Putative Fe-S cluster; Region: FeS; cl17515 744872007459 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872007460 dimer interface [polypeptide binding]; other site 744872007461 putative CheW interface [polypeptide binding]; other site 744872007462 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 744872007463 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 744872007464 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872007465 dimer interface [polypeptide binding]; other site 744872007466 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 744872007467 putative CheW interface [polypeptide binding]; other site 744872007468 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 744872007469 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 744872007470 ATP binding site [chemical binding]; other site 744872007471 active site 744872007472 substrate binding site [chemical binding]; other site 744872007473 amidophosphoribosyltransferase; Provisional; Region: PRK05793 744872007474 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 744872007475 active site 744872007476 tetramer interface [polypeptide binding]; other site 744872007477 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 744872007478 active site 744872007479 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 744872007480 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 744872007481 dimerization interface [polypeptide binding]; other site 744872007482 putative ATP binding site [chemical binding]; other site 744872007483 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 744872007484 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 744872007485 active site 744872007486 substrate binding site [chemical binding]; other site 744872007487 cosubstrate binding site; other site 744872007488 catalytic site [active] 744872007489 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 744872007490 purine monophosphate binding site [chemical binding]; other site 744872007491 dimer interface [polypeptide binding]; other site 744872007492 putative catalytic residues [active] 744872007493 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 744872007494 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 744872007495 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 744872007496 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 744872007497 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 744872007498 ATP-grasp domain; Region: ATP-grasp_4; cl17255 744872007499 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 744872007500 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 744872007501 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 744872007502 WHG domain; Region: WHG; pfam13305 744872007503 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872007504 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872007505 dimer interface [polypeptide binding]; other site 744872007506 ABC-ATPase subunit interface; other site 744872007507 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 744872007508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872007509 dimer interface [polypeptide binding]; other site 744872007510 conserved gate region; other site 744872007511 ABC-ATPase subunit interface; other site 744872007512 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872007513 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 744872007514 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 744872007515 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 744872007516 Walker A/P-loop; other site 744872007517 ATP binding site [chemical binding]; other site 744872007518 Q-loop/lid; other site 744872007519 ABC transporter signature motif; other site 744872007520 Walker B; other site 744872007521 D-loop; other site 744872007522 H-loop/switch region; other site 744872007523 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 744872007524 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 744872007525 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872007526 Walker A/P-loop; other site 744872007527 ATP binding site [chemical binding]; other site 744872007528 Q-loop/lid; other site 744872007529 ABC transporter signature motif; other site 744872007530 Walker B; other site 744872007531 D-loop; other site 744872007532 H-loop/switch region; other site 744872007533 HAMP domain; Region: HAMP; pfam00672 744872007534 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 744872007535 Histidine kinase; Region: HisKA_2; pfam07568 744872007536 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872007537 ATP binding site [chemical binding]; other site 744872007538 Mg2+ binding site [ion binding]; other site 744872007539 G-X-G motif; other site 744872007540 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 744872007541 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 744872007542 ligand binding site [chemical binding]; other site 744872007543 AMP-binding domain protein; Validated; Region: PRK08315 744872007544 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 744872007545 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 744872007546 acyl-activating enzyme (AAE) consensus motif; other site 744872007547 putative AMP binding site [chemical binding]; other site 744872007548 putative active site [active] 744872007549 putative CoA binding site [chemical binding]; other site 744872007550 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 744872007551 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 744872007552 non-specific DNA binding site [nucleotide binding]; other site 744872007553 salt bridge; other site 744872007554 sequence-specific DNA binding site [nucleotide binding]; other site 744872007555 Cupin domain; Region: Cupin_2; pfam07883 744872007556 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 744872007557 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 744872007558 FMN-binding domain; Region: FMN_bind; pfam04205 744872007559 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 744872007560 L-aspartate oxidase; Provisional; Region: PRK06175 744872007561 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 744872007562 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 744872007563 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 744872007564 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 744872007565 putative active site pocket [active] 744872007566 4-fold oligomerization interface [polypeptide binding]; other site 744872007567 metal binding residues [ion binding]; metal-binding site 744872007568 3-fold/trimer interface [polypeptide binding]; other site 744872007569 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 744872007570 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 744872007571 putative active site [active] 744872007572 oxyanion strand; other site 744872007573 catalytic triad [active] 744872007574 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 744872007575 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 744872007576 substrate binding site [chemical binding]; other site 744872007577 glutamase interaction surface [polypeptide binding]; other site 744872007578 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 744872007579 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 744872007580 catalytic residues [active] 744872007581 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 744872007582 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 744872007583 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in His4-like fungal histidine biosynthesis trifunctional proteins and their homologs; Region: NTP-PPase_His4; cd11546 744872007584 metal binding site [ion binding]; metal-binding site 744872007585 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 744872007586 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 744872007587 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872007588 homodimer interface [polypeptide binding]; other site 744872007589 catalytic residue [active] 744872007590 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 744872007591 histidinol dehydrogenase; Region: hisD; TIGR00069 744872007592 NAD binding site [chemical binding]; other site 744872007593 dimerization interface [polypeptide binding]; other site 744872007594 product binding site; other site 744872007595 substrate binding site [chemical binding]; other site 744872007596 zinc binding site [ion binding]; other site 744872007597 catalytic residues [active] 744872007598 Integrase core domain; Region: rve; pfam00665 744872007599 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 744872007600 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 744872007601 FeS/SAM binding site; other site 744872007602 Transposase domain (DUF772); Region: DUF772; pfam05598 744872007603 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872007604 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 744872007605 TPR motif; other site 744872007606 binding surface 744872007607 Transposase domain (DUF772); Region: DUF772; pfam05598 744872007608 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872007609 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 744872007610 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 744872007611 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872007612 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 744872007613 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 744872007614 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872007615 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872007616 dimer interface [polypeptide binding]; other site 744872007617 conserved gate region; other site 744872007618 ABC-ATPase subunit interface; other site 744872007619 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 744872007620 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872007621 dimer interface [polypeptide binding]; other site 744872007622 conserved gate region; other site 744872007623 putative PBP binding loops; other site 744872007624 ABC-ATPase subunit interface; other site 744872007625 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872007626 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872007627 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 744872007628 active site 744872007629 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 744872007630 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 744872007631 inhibitor binding site; inhibition site 744872007632 active site 744872007633 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 744872007634 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 744872007635 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 744872007636 Transposase; Region: DDE_Tnp_ISL3; pfam01610 744872007637 cyclase homology domain; Region: CHD; cd07302 744872007638 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 744872007639 nucleotidyl binding site; other site 744872007640 metal binding site [ion binding]; metal-binding site 744872007641 dimer interface [polypeptide binding]; other site 744872007642 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 744872007643 ATP-grasp domain; Region: ATP-grasp; pfam02222 744872007644 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 744872007645 Peptidase family M48; Region: Peptidase_M48; cl12018 744872007646 Helix-turn-helix domain; Region: HTH_18; pfam12833 744872007647 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872007648 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 744872007649 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 744872007650 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 744872007651 nucleotide binding site [chemical binding]; other site 744872007652 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 744872007653 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 744872007654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 744872007655 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 744872007656 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 744872007657 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 744872007658 Transcriptional regulators [Transcription]; Region: MarR; COG1846 744872007659 MarR family; Region: MarR_2; cl17246 744872007660 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 744872007661 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 744872007662 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 744872007663 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 744872007664 active site 744872007665 dimer interface [polypeptide binding]; other site 744872007666 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 744872007667 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 744872007668 active site 744872007669 trimer interface [polypeptide binding]; other site 744872007670 allosteric site; other site 744872007671 active site lid [active] 744872007672 hexamer (dimer of trimers) interface [polypeptide binding]; other site 744872007673 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 744872007674 MgtE intracellular N domain; Region: MgtE_N; pfam03448 744872007675 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 744872007676 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 744872007677 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 744872007678 Divalent cation transporter; Region: MgtE; pfam01769 744872007679 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 744872007680 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 744872007681 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 744872007682 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 744872007683 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 744872007684 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 744872007685 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 744872007686 dimer interface [polypeptide binding]; other site 744872007687 PYR/PP interface [polypeptide binding]; other site 744872007688 TPP binding site [chemical binding]; other site 744872007689 substrate binding site [chemical binding]; other site 744872007690 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 744872007691 Domain of unknown function; Region: EKR; pfam10371 744872007692 4Fe-4S binding domain; Region: Fer4_6; pfam12837 744872007693 4Fe-4S binding domain; Region: Fer4; pfam00037 744872007694 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 744872007695 TPP-binding site [chemical binding]; other site 744872007696 dimer interface [polypeptide binding]; other site 744872007697 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 744872007698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872007699 active site 744872007700 phosphorylation site [posttranslational modification] 744872007701 intermolecular recognition site; other site 744872007702 dimerization interface [polypeptide binding]; other site 744872007703 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 744872007704 Walker A motif; other site 744872007705 ATP binding site [chemical binding]; other site 744872007706 Walker B motif; other site 744872007707 arginine finger; other site 744872007708 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 744872007709 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 744872007710 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 744872007711 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 744872007712 fructuronate transporter; Provisional; Region: PRK10034; cl15264 744872007713 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 744872007714 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 744872007715 homodimer interface [polypeptide binding]; other site 744872007716 metal binding site [ion binding]; metal-binding site 744872007717 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 744872007718 homodimer interface [polypeptide binding]; other site 744872007719 active site 744872007720 putative chemical substrate binding site [chemical binding]; other site 744872007721 metal binding site [ion binding]; metal-binding site 744872007722 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 744872007723 putative active site [active] 744872007724 catalytic residue [active] 744872007725 Melibiase; Region: Melibiase; pfam02065 744872007726 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 744872007727 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 744872007728 DRTGG domain; Region: DRTGG; pfam07085 744872007729 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 744872007730 DHH family; Region: DHH; pfam01368 744872007731 DHHA2 domain; Region: DHHA2; pfam02833 744872007732 Uncharacterized conserved protein [Function unknown]; Region: COG1262 744872007733 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 744872007734 ATP-dependent Clp protease proteolytic subunit; Provisional; Region: PRK14512 744872007735 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 744872007736 oligomer interface [polypeptide binding]; other site 744872007737 active site residues [active] 744872007738 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 744872007739 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 744872007740 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 744872007741 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 744872007742 active site residue [active] 744872007743 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 744872007744 active site residue [active] 744872007745 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 744872007746 binding surface 744872007747 TPR motif; other site 744872007748 Tetratricopeptide repeat; Region: TPR_12; pfam13424 744872007749 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 744872007750 TPR motif; other site 744872007751 binding surface 744872007752 TPR repeat; Region: TPR_11; pfam13414 744872007753 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 744872007754 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 744872007755 Potassium binding sites [ion binding]; other site 744872007756 Cesium cation binding sites [ion binding]; other site 744872007757 alanine racemase; Reviewed; Region: alr; PRK00053 744872007758 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 744872007759 active site 744872007760 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 744872007761 dimer interface [polypeptide binding]; other site 744872007762 substrate binding site [chemical binding]; other site 744872007763 catalytic residues [active] 744872007764 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 744872007765 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 744872007766 Walker A/P-loop; other site 744872007767 ATP binding site [chemical binding]; other site 744872007768 Q-loop/lid; other site 744872007769 ABC transporter signature motif; other site 744872007770 Walker B; other site 744872007771 D-loop; other site 744872007772 H-loop/switch region; other site 744872007773 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 744872007774 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872007775 dimer interface [polypeptide binding]; other site 744872007776 conserved gate region; other site 744872007777 ABC-ATPase subunit interface; other site 744872007778 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 744872007779 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 744872007780 substrate binding pocket [chemical binding]; other site 744872007781 membrane-bound complex binding site; other site 744872007782 hinge residues; other site 744872007783 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 744872007784 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 744872007785 metal ion-dependent adhesion site (MIDAS); other site 744872007786 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 744872007787 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 744872007788 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 744872007789 putative FMN binding site [chemical binding]; other site 744872007790 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 744872007791 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 744872007792 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 744872007793 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 744872007794 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 744872007795 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 744872007796 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 744872007797 active site 744872007798 catalytic site [active] 744872007799 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 744872007800 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 744872007801 hinge; other site 744872007802 active site 744872007803 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 744872007804 TrkA-N domain; Region: TrkA_N; pfam02254 744872007805 TrkA-C domain; Region: TrkA_C; pfam02080 744872007806 TrkA-N domain; Region: TrkA_N; pfam02254 744872007807 TrkA-C domain; Region: TrkA_C; pfam02080 744872007808 Cation transport protein; Region: TrkH; cl17365 744872007809 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 744872007810 Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]; Region: LysS; COG1384 744872007811 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 744872007812 active site 744872007813 HIGH motif; other site 744872007814 KMSKS motif; other site 744872007815 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 744872007816 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 744872007817 metal-binding site [ion binding] 744872007818 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 744872007819 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 744872007820 motif II; other site 744872007821 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 744872007822 metal-binding site [ion binding] 744872007823 Omptin family; Region: Omptin; cl01886 744872007824 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 744872007825 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 744872007826 ligand binding site [chemical binding]; other site 744872007827 flexible hinge region; other site 744872007828 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 744872007829 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872007830 metal binding site [ion binding]; metal-binding site 744872007831 active site 744872007832 I-site; other site 744872007833 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 744872007834 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 744872007835 ligand binding site [chemical binding]; other site 744872007836 flexible hinge region; other site 744872007837 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 744872007838 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872007839 metal binding site [ion binding]; metal-binding site 744872007840 active site 744872007841 I-site; other site 744872007842 Transposase domain (DUF772); Region: DUF772; pfam05598 744872007843 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 744872007844 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 744872007845 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 744872007846 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 744872007847 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 744872007848 Predicted permeases [General function prediction only]; Region: COG0679 744872007849 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 744872007850 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 744872007851 NAD(P) binding site [chemical binding]; other site 744872007852 catalytic residues [active] 744872007853 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 744872007854 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 744872007855 Response regulator receiver domain; Region: Response_reg; pfam00072 744872007856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872007857 active site 744872007858 phosphorylation site [posttranslational modification] 744872007859 intermolecular recognition site; other site 744872007860 dimerization interface [polypeptide binding]; other site 744872007861 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 744872007862 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 744872007863 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 744872007864 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872007865 ATP binding site [chemical binding]; other site 744872007866 Mg2+ binding site [ion binding]; other site 744872007867 G-X-G motif; other site 744872007868 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 744872007869 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 744872007870 Walker A/P-loop; other site 744872007871 ATP binding site [chemical binding]; other site 744872007872 Q-loop/lid; other site 744872007873 ABC transporter signature motif; other site 744872007874 Walker B; other site 744872007875 D-loop; other site 744872007876 H-loop/switch region; other site 744872007877 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 744872007878 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 744872007879 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 744872007880 Walker A/P-loop; other site 744872007881 ATP binding site [chemical binding]; other site 744872007882 Q-loop/lid; other site 744872007883 ABC transporter signature motif; other site 744872007884 Walker B; other site 744872007885 D-loop; other site 744872007886 H-loop/switch region; other site 744872007887 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 744872007888 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 744872007889 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 744872007890 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872007891 dimer interface [polypeptide binding]; other site 744872007892 conserved gate region; other site 744872007893 putative PBP binding loops; other site 744872007894 ABC-ATPase subunit interface; other site 744872007895 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 744872007896 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872007897 dimer interface [polypeptide binding]; other site 744872007898 conserved gate region; other site 744872007899 putative PBP binding loops; other site 744872007900 ABC-ATPase subunit interface; other site 744872007901 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 744872007902 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 744872007903 peptide binding site [polypeptide binding]; other site 744872007904 Phosphate acyltransferases; Region: PlsC; smart00563 744872007905 putative acyl-acceptor binding pocket; other site 744872007906 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 744872007907 putative metal binding site [ion binding]; other site 744872007908 Uncharacterized conserved protein [Function unknown]; Region: COG1432 744872007909 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 744872007910 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 744872007911 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 744872007912 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 744872007913 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 744872007914 ATP binding site [chemical binding]; other site 744872007915 putative Mg++ binding site [ion binding]; other site 744872007916 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 744872007917 nucleotide binding region [chemical binding]; other site 744872007918 ATP-binding site [chemical binding]; other site 744872007919 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 744872007920 putative FMN binding site [chemical binding]; other site 744872007921 Cache domain; Region: Cache_1; pfam02743 744872007922 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 744872007923 dimerization interface [polypeptide binding]; other site 744872007924 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872007925 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872007926 dimer interface [polypeptide binding]; other site 744872007927 putative CheW interface [polypeptide binding]; other site 744872007928 Helix-turn-helix domain; Region: HTH_28; pfam13518 744872007929 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 744872007930 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 744872007931 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 744872007932 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 744872007933 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 744872007934 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 744872007935 dihydroorotase; Validated; Region: pyrC; PRK09357 744872007936 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 744872007937 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 744872007938 active site 744872007939 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 744872007940 active site 744872007941 dimer interface [polypeptide binding]; other site 744872007942 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 744872007943 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 744872007944 FAD binding pocket [chemical binding]; other site 744872007945 FAD binding motif [chemical binding]; other site 744872007946 phosphate binding motif [ion binding]; other site 744872007947 beta-alpha-beta structure motif; other site 744872007948 NAD binding pocket [chemical binding]; other site 744872007949 Iron coordination center [ion binding]; other site 744872007950 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 744872007951 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 744872007952 heterodimer interface [polypeptide binding]; other site 744872007953 active site 744872007954 FMN binding site [chemical binding]; other site 744872007955 homodimer interface [polypeptide binding]; other site 744872007956 substrate binding site [chemical binding]; other site 744872007957 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 744872007958 active site 744872007959 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 744872007960 Major Facilitator Superfamily; Region: MFS_1; pfam07690 744872007961 putative substrate translocation pore; other site 744872007962 HEAT repeats; Region: HEAT_2; pfam13646 744872007963 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 744872007964 HEAT repeats; Region: HEAT_2; pfam13646 744872007965 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 744872007966 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 744872007967 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 744872007968 DNA binding residues [nucleotide binding] 744872007969 GTP-binding protein Der; Reviewed; Region: PRK00093 744872007970 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 744872007971 G1 box; other site 744872007972 GTP/Mg2+ binding site [chemical binding]; other site 744872007973 Switch I region; other site 744872007974 G2 box; other site 744872007975 Switch II region; other site 744872007976 G3 box; other site 744872007977 G4 box; other site 744872007978 G5 box; other site 744872007979 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 744872007980 G1 box; other site 744872007981 GTP/Mg2+ binding site [chemical binding]; other site 744872007982 Switch I region; other site 744872007983 G2 box; other site 744872007984 G3 box; other site 744872007985 Switch II region; other site 744872007986 G4 box; other site 744872007987 G5 box; other site 744872007988 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 744872007989 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 744872007990 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 744872007991 DASH complex subunit Dad3; Region: DASH_Dad3; pfam08656 744872007992 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 744872007993 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 744872007994 B12 binding site [chemical binding]; other site 744872007995 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 744872007996 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 744872007997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872007998 active site 744872007999 phosphorylation site [posttranslational modification] 744872008000 intermolecular recognition site; other site 744872008001 dimerization interface [polypeptide binding]; other site 744872008002 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 744872008003 cyclase homology domain; Region: CHD; cd07302 744872008004 nucleotidyl binding site; other site 744872008005 metal binding site [ion binding]; metal-binding site 744872008006 dimer interface [polypeptide binding]; other site 744872008007 2TM domain; Region: 2TM; pfam13239 744872008008 2TM domain; Region: 2TM; pfam13239 744872008009 DNA repair protein RadA; Provisional; Region: PRK11823 744872008010 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 744872008011 Walker A motif; other site 744872008012 ATP binding site [chemical binding]; other site 744872008013 Walker B motif; other site 744872008014 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 744872008015 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 744872008016 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 744872008017 active site 744872008018 phosphorylation site [posttranslational modification] 744872008019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 744872008020 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 744872008021 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 744872008022 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 744872008023 N-acetyl-D-glucosamine binding site [chemical binding]; other site 744872008024 catalytic residue [active] 744872008025 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 744872008026 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 744872008027 putative ligand binding site [chemical binding]; other site 744872008028 putative NAD binding site [chemical binding]; other site 744872008029 putative catalytic site [active] 744872008030 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 744872008031 L-serine binding site [chemical binding]; other site 744872008032 ACT domain interface; other site 744872008033 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 744872008034 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 744872008035 catalytic residue [active] 744872008036 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 744872008037 CoA binding domain; Region: CoA_binding; smart00881 744872008038 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 744872008039 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 744872008040 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 744872008041 Hpr binding site; other site 744872008042 active site 744872008043 homohexamer subunit interaction site [polypeptide binding]; other site 744872008044 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 744872008045 dimerization domain swap beta strand [polypeptide binding]; other site 744872008046 regulatory protein interface [polypeptide binding]; other site 744872008047 active site 744872008048 regulatory phosphorylation site [posttranslational modification]; other site 744872008049 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872008050 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 744872008051 dimerization interface [polypeptide binding]; other site 744872008052 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 744872008053 dimer interface [polypeptide binding]; other site 744872008054 phosphorylation site [posttranslational modification] 744872008055 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872008056 ATP binding site [chemical binding]; other site 744872008057 Mg2+ binding site [ion binding]; other site 744872008058 G-X-G motif; other site 744872008059 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 744872008060 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872008061 active site 744872008062 phosphorylation site [posttranslational modification] 744872008063 intermolecular recognition site; other site 744872008064 dimerization interface [polypeptide binding]; other site 744872008065 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 744872008066 Walker A motif; other site 744872008067 ATP binding site [chemical binding]; other site 744872008068 Walker B motif; other site 744872008069 arginine finger; other site 744872008070 LexA repressor; Validated; Region: PRK00215 744872008071 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 744872008072 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 744872008073 Catalytic site [active] 744872008074 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 744872008075 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 744872008076 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 744872008077 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 744872008078 Predicted membrane protein [Function unknown]; Region: COG2259 744872008079 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 744872008080 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 744872008081 substrate binding pocket [chemical binding]; other site 744872008082 chain length determination region; other site 744872008083 substrate-Mg2+ binding site; other site 744872008084 catalytic residues [active] 744872008085 aspartate-rich region 1; other site 744872008086 active site lid residues [active] 744872008087 aspartate-rich region 2; other site 744872008088 Predicted membrane protein [Function unknown]; Region: COG1971 744872008089 Domain of unknown function DUF; Region: DUF204; pfam02659 744872008090 Domain of unknown function DUF; Region: DUF204; pfam02659 744872008091 PUA domain; Region: PUA; cl00607 744872008092 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 744872008093 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 744872008094 putative RNA binding site [nucleotide binding]; other site 744872008095 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 744872008096 S-adenosylmethionine binding site [chemical binding]; other site 744872008097 polyphosphate kinase; Provisional; Region: PRK05443 744872008098 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 744872008099 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 744872008100 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 744872008101 putative domain interface [polypeptide binding]; other site 744872008102 putative active site [active] 744872008103 catalytic site [active] 744872008104 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 744872008105 putative domain interface [polypeptide binding]; other site 744872008106 putative active site [active] 744872008107 catalytic site [active] 744872008108 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 744872008109 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 744872008110 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872008111 Zn2+ binding site [ion binding]; other site 744872008112 Mg2+ binding site [ion binding]; other site 744872008113 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 744872008114 Trehalase; Region: Trehalase; cl17346 744872008115 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 744872008116 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 744872008117 GatB domain; Region: GatB_Yqey; smart00845 744872008118 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 744872008119 active site 744872008120 homodimer interface [polypeptide binding]; other site 744872008121 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 744872008122 catalytic core [active] 744872008123 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 744872008124 binding surface 744872008125 TPR motif; other site 744872008126 TPR repeat; Region: TPR_11; pfam13414 744872008127 TPR repeat; Region: TPR_11; pfam13414 744872008128 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 744872008129 binding surface 744872008130 TPR motif; other site 744872008131 DHH family; Region: DHH; pfam01368 744872008132 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 744872008133 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 744872008134 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 744872008135 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 744872008136 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 744872008137 N-terminal plug; other site 744872008138 ligand-binding site [chemical binding]; other site 744872008139 Uncharacterized conserved protein [Function unknown]; Region: COG1912 744872008140 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 744872008141 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872008142 dimer interface [polypeptide binding]; other site 744872008143 conserved gate region; other site 744872008144 putative PBP binding loops; other site 744872008145 ABC-ATPase subunit interface; other site 744872008146 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 744872008147 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 744872008148 substrate binding pocket [chemical binding]; other site 744872008149 membrane-bound complex binding site; other site 744872008150 hinge residues; other site 744872008151 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 744872008152 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872008153 active site 744872008154 phosphorylation site [posttranslational modification] 744872008155 intermolecular recognition site; other site 744872008156 dimerization interface [polypeptide binding]; other site 744872008157 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 744872008158 DNA binding site [nucleotide binding] 744872008159 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872008160 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 744872008161 dimerization interface [polypeptide binding]; other site 744872008162 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 744872008163 dimer interface [polypeptide binding]; other site 744872008164 phosphorylation site [posttranslational modification] 744872008165 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872008166 ATP binding site [chemical binding]; other site 744872008167 Mg2+ binding site [ion binding]; other site 744872008168 G-X-G motif; other site 744872008169 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 744872008170 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872008171 Walker A/P-loop; other site 744872008172 ATP binding site [chemical binding]; other site 744872008173 Q-loop/lid; other site 744872008174 ABC transporter signature motif; other site 744872008175 Walker B; other site 744872008176 D-loop; other site 744872008177 H-loop/switch region; other site 744872008178 ABC-2 type transporter; Region: ABC2_membrane; cl17235 744872008179 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 744872008180 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 744872008181 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 744872008182 Nitrate and nitrite sensing; Region: NIT; pfam08376 744872008183 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 744872008184 dimerization interface [polypeptide binding]; other site 744872008185 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 744872008186 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872008187 dimer interface [polypeptide binding]; other site 744872008188 putative CheW interface [polypeptide binding]; other site 744872008189 GAF domain; Region: GAF; pfam01590 744872008190 GAF domain; Region: GAF_2; pfam13185 744872008191 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872008192 Zn2+ binding site [ion binding]; other site 744872008193 Mg2+ binding site [ion binding]; other site 744872008194 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 744872008195 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 744872008196 FeS/SAM binding site; other site 744872008197 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 744872008198 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 744872008199 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 744872008200 active site 744872008201 catalytic site [active] 744872008202 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 744872008203 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 744872008204 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 744872008205 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 744872008206 catalytic residue [active] 744872008207 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 744872008208 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 744872008209 substrate binding pocket [chemical binding]; other site 744872008210 membrane-bound complex binding site; other site 744872008211 hinge residues; other site 744872008212 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 744872008213 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872008214 dimer interface [polypeptide binding]; other site 744872008215 conserved gate region; other site 744872008216 putative PBP binding loops; other site 744872008217 ABC-ATPase subunit interface; other site 744872008218 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 744872008219 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 744872008220 Walker A/P-loop; other site 744872008221 ATP binding site [chemical binding]; other site 744872008222 Q-loop/lid; other site 744872008223 ABC transporter signature motif; other site 744872008224 Walker B; other site 744872008225 D-loop; other site 744872008226 H-loop/switch region; other site 744872008227 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 744872008228 Low molecular weight phosphatase family; Region: LMWPc; cd00115 744872008229 active site 744872008230 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 744872008231 dimerization interface [polypeptide binding]; other site 744872008232 putative DNA binding site [nucleotide binding]; other site 744872008233 putative Zn2+ binding site [ion binding]; other site 744872008234 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 744872008235 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 744872008236 substrate binding site [chemical binding]; other site 744872008237 ATP binding site [chemical binding]; other site 744872008238 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 744872008239 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 744872008240 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 744872008241 Transcriptional regulators [Transcription]; Region: PurR; COG1609 744872008242 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 744872008243 DNA binding site [nucleotide binding] 744872008244 domain linker motif; other site 744872008245 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 744872008246 dimerization interface [polypeptide binding]; other site 744872008247 ligand binding site [chemical binding]; other site 744872008248 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 744872008249 DctM-like transporters; Region: DctM; pfam06808 744872008250 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 744872008251 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 744872008252 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 744872008253 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 744872008254 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 744872008255 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872008256 active site 744872008257 phosphorylation site [posttranslational modification] 744872008258 intermolecular recognition site; other site 744872008259 dimerization interface [polypeptide binding]; other site 744872008260 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872008261 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872008262 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 744872008263 dimerization interface [polypeptide binding]; other site 744872008264 Histidine kinase; Region: His_kinase; pfam06580 744872008265 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872008266 ATP binding site [chemical binding]; other site 744872008267 Mg2+ binding site [ion binding]; other site 744872008268 G-X-G motif; other site 744872008269 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 744872008270 PAS fold; Region: PAS_3; pfam08447 744872008271 putative active site [active] 744872008272 heme pocket [chemical binding]; other site 744872008273 GAF domain; Region: GAF_2; pfam13185 744872008274 GAF domain; Region: GAF_3; pfam13492 744872008275 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 744872008276 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872008277 metal binding site [ion binding]; metal-binding site 744872008278 active site 744872008279 I-site; other site 744872008280 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 744872008281 NlpC/P60 family; Region: NLPC_P60; pfam00877 744872008282 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 744872008283 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 744872008284 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 744872008285 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 744872008286 TPP-binding site [chemical binding]; other site 744872008287 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 744872008288 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 744872008289 dimer interface [polypeptide binding]; other site 744872008290 PYR/PP interface [polypeptide binding]; other site 744872008291 TPP binding site [chemical binding]; other site 744872008292 substrate binding site [chemical binding]; other site 744872008293 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 744872008294 Ferredoxin [Energy production and conversion]; Region: COG1146 744872008295 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 744872008296 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 744872008297 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 744872008298 nucleotide binding site [chemical binding]; other site 744872008299 Acetokinase family; Region: Acetate_kinase; cl17229 744872008300 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 744872008301 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 744872008302 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 744872008303 peptidase T; Region: peptidase-T; TIGR01882 744872008304 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 744872008305 metal binding site [ion binding]; metal-binding site 744872008306 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 744872008307 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 744872008308 DNA-binding site [nucleotide binding]; DNA binding site 744872008309 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 744872008310 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 744872008311 Walker A/P-loop; other site 744872008312 ATP binding site [chemical binding]; other site 744872008313 Q-loop/lid; other site 744872008314 ABC transporter signature motif; other site 744872008315 Walker B; other site 744872008316 D-loop; other site 744872008317 H-loop/switch region; other site 744872008318 cyclase homology domain; Region: CHD; cd07302 744872008319 nucleotidyl binding site; other site 744872008320 metal binding site [ion binding]; metal-binding site 744872008321 dimer interface [polypeptide binding]; other site 744872008322 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 744872008323 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 744872008324 putative trimer interface [polypeptide binding]; other site 744872008325 putative CoA binding site [chemical binding]; other site 744872008326 Nucleoside recognition; Region: Gate; pfam07670 744872008327 Trp repressor protein; Region: Trp_repressor; cl17266 744872008328 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 744872008329 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872008330 Walker A/P-loop; other site 744872008331 ATP binding site [chemical binding]; other site 744872008332 Q-loop/lid; other site 744872008333 ABC transporter signature motif; other site 744872008334 Walker B; other site 744872008335 D-loop; other site 744872008336 H-loop/switch region; other site 744872008337 ABC transporter; Region: ABC_tran_2; pfam12848 744872008338 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 744872008339 PAS fold; Region: PAS_4; pfam08448 744872008340 PAS domain S-box; Region: sensory_box; TIGR00229 744872008341 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 744872008342 putative active site [active] 744872008343 heme pocket [chemical binding]; other site 744872008344 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 744872008345 dimer interface [polypeptide binding]; other site 744872008346 phosphorylation site [posttranslational modification] 744872008347 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872008348 ATP binding site [chemical binding]; other site 744872008349 Mg2+ binding site [ion binding]; other site 744872008350 G-X-G motif; other site 744872008351 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 744872008352 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 744872008353 metal binding site [ion binding]; metal-binding site 744872008354 active site 744872008355 I-site; other site 744872008356 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872008357 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 744872008358 TM-ABC transporter signature motif; other site 744872008359 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872008360 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 744872008361 TM-ABC transporter signature motif; other site 744872008362 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 744872008363 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 744872008364 Walker A/P-loop; other site 744872008365 ATP binding site [chemical binding]; other site 744872008366 Q-loop/lid; other site 744872008367 ABC transporter signature motif; other site 744872008368 Walker B; other site 744872008369 D-loop; other site 744872008370 H-loop/switch region; other site 744872008371 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872008372 Walker A/P-loop; other site 744872008373 ATP binding site [chemical binding]; other site 744872008374 Q-loop/lid; other site 744872008375 ABC transporter signature motif; other site 744872008376 Walker B; other site 744872008377 D-loop; other site 744872008378 H-loop/switch region; other site 744872008379 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 744872008380 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 744872008381 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 744872008382 putative active site [active] 744872008383 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 744872008384 PemK-like protein; Region: PemK; cl00995 744872008385 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 744872008386 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 744872008387 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 744872008388 active site 744872008389 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 744872008390 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 744872008391 active site 744872008392 motif I; other site 744872008393 motif II; other site 744872008394 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 744872008395 Peptidase family M48; Region: Peptidase_M48; pfam01435 744872008396 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 744872008397 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 744872008398 PYR/PP interface [polypeptide binding]; other site 744872008399 dimer interface [polypeptide binding]; other site 744872008400 TPP binding site [chemical binding]; other site 744872008401 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 744872008402 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 744872008403 TPP-binding site [chemical binding]; other site 744872008404 dimer interface [polypeptide binding]; other site 744872008405 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 744872008406 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 744872008407 tartrate dehydrogenase; Region: TTC; TIGR02089 744872008408 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 744872008409 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 744872008410 active site 744872008411 catalytic residues [active] 744872008412 metal binding site [ion binding]; metal-binding site 744872008413 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 744872008414 2-isopropylmalate synthase; Validated; Region: PRK00915 744872008415 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 744872008416 active site 744872008417 catalytic residues [active] 744872008418 metal binding site [ion binding]; metal-binding site 744872008419 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 744872008420 ketol-acid reductoisomerase; Provisional; Region: PRK05479 744872008421 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 744872008422 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 744872008423 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 744872008424 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 744872008425 putative valine binding site [chemical binding]; other site 744872008426 dimer interface [polypeptide binding]; other site 744872008427 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 744872008428 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 744872008429 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 744872008430 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 744872008431 Prephenate dehydratase; Region: PDT; pfam00800 744872008432 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 744872008433 putative L-Phe binding site [chemical binding]; other site 744872008434 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 744872008435 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 744872008436 active site 744872008437 motif I; other site 744872008438 motif II; other site 744872008439 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 744872008440 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 744872008441 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 744872008442 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 744872008443 High-affinity nickel-transport protein; Region: NicO; cl00964 744872008444 High-affinity nickel-transport protein; Region: NicO; cl00964 744872008445 HipA N-terminal domain; Region: Couple_hipA; pfam13657 744872008446 HipA-like N-terminal domain; Region: HipA_N; pfam07805 744872008447 HipA-like C-terminal domain; Region: HipA_C; pfam07804 744872008448 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 744872008449 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 744872008450 non-specific DNA binding site [nucleotide binding]; other site 744872008451 salt bridge; other site 744872008452 sequence-specific DNA binding site [nucleotide binding]; other site 744872008453 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 744872008454 RibD C-terminal domain; Region: RibD_C; cl17279 744872008455 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 744872008456 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 744872008457 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 744872008458 substrate binding site [chemical binding]; other site 744872008459 ligand binding site [chemical binding]; other site 744872008460 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 744872008461 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 744872008462 substrate binding site [chemical binding]; other site 744872008463 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 744872008464 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 744872008465 PYR/PP interface [polypeptide binding]; other site 744872008466 dimer interface [polypeptide binding]; other site 744872008467 TPP binding site [chemical binding]; other site 744872008468 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 744872008469 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 744872008470 TPP-binding site [chemical binding]; other site 744872008471 dimer interface [polypeptide binding]; other site 744872008472 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 744872008473 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 744872008474 putative valine binding site [chemical binding]; other site 744872008475 dimer interface [polypeptide binding]; other site 744872008476 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 744872008477 benzoate transport; Region: 2A0115; TIGR00895 744872008478 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 744872008479 putative substrate translocation pore; other site 744872008480 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 744872008481 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 744872008482 active site 744872008483 NTP binding site [chemical binding]; other site 744872008484 metal binding triad [ion binding]; metal-binding site 744872008485 antibiotic binding site [chemical binding]; other site 744872008486 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 744872008487 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 744872008488 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 744872008489 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 744872008490 ATP binding site [chemical binding]; other site 744872008491 putative Mg++ binding site [ion binding]; other site 744872008492 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 744872008493 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 744872008494 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 744872008495 HsdM N-terminal domain; Region: HsdM_N; pfam12161 744872008496 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 744872008497 Methyltransferase domain; Region: Methyltransf_26; pfam13659 744872008498 YcfA-like protein; Region: YcfA; pfam07927 744872008499 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 744872008500 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 744872008501 Coenzyme A binding pocket [chemical binding]; other site 744872008502 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872008503 ATP binding site [chemical binding]; other site 744872008504 Mg2+ binding site [ion binding]; other site 744872008505 G-X-G motif; other site 744872008506 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 744872008507 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 744872008508 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 744872008509 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 744872008510 oligomer interface [polypeptide binding]; other site 744872008511 metal binding site [ion binding]; metal-binding site 744872008512 metal binding site [ion binding]; metal-binding site 744872008513 Cl binding site [ion binding]; other site 744872008514 aspartate ring; other site 744872008515 basic sphincter; other site 744872008516 putative hydrophobic gate; other site 744872008517 periplasmic entrance; other site 744872008518 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 744872008519 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 744872008520 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 744872008521 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872008522 putative CheW interface [polypeptide binding]; other site 744872008523 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 744872008524 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 744872008525 motif II; other site 744872008526 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 744872008527 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 744872008528 HIGH motif; other site 744872008529 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 744872008530 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 744872008531 active site 744872008532 KMSKS motif; other site 744872008533 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 744872008534 tRNA binding surface [nucleotide binding]; other site 744872008535 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 744872008536 Cupin domain; Region: Cupin_2; pfam07883 744872008537 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 744872008538 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 744872008539 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 744872008540 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 744872008541 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 744872008542 tetramer interface [polypeptide binding]; other site 744872008543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872008544 catalytic residue [active] 744872008545 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 744872008546 Metallopeptidase family M24; Region: Peptidase_M24; pfam00557 744872008547 active site 744872008548 Protein of unknown function (DUF1667); Region: DUF1667; cl17602 744872008549 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 744872008550 hydroxyglutarate oxidase; Provisional; Region: PRK11728 744872008551 Predicted dehydrogenase [General function prediction only]; Region: COG0579 744872008552 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 744872008553 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 744872008554 HDOD domain; Region: HDOD; pfam08668 744872008555 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872008556 Zn2+ binding site [ion binding]; other site 744872008557 Mg2+ binding site [ion binding]; other site 744872008558 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 744872008559 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 744872008560 binding surface 744872008561 TPR motif; other site 744872008562 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 744872008563 binding surface 744872008564 TPR motif; other site 744872008565 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 744872008566 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 744872008567 binding surface 744872008568 TPR motif; other site 744872008569 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 744872008570 binding surface 744872008571 TPR motif; other site 744872008572 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 744872008573 binding surface 744872008574 TPR motif; other site 744872008575 TPR repeat; Region: TPR_11; pfam13414 744872008576 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 744872008577 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 744872008578 Interdomain contacts; other site 744872008579 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 744872008580 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 744872008581 GIY-YIG motif/motif A; other site 744872008582 active site 744872008583 catalytic site [active] 744872008584 putative DNA binding site [nucleotide binding]; other site 744872008585 metal binding site [ion binding]; metal-binding site 744872008586 UvrB/uvrC motif; Region: UVR; pfam02151 744872008587 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 744872008588 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 744872008589 DNA binding site [nucleotide binding] 744872008590 Sigma 54 modulation protein / S30EA ribosomal protein; Region: Ribosomal_S30AE; pfam02482 744872008591 30S subunit binding site; other site 744872008592 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 744872008593 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 744872008594 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 744872008595 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 744872008596 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 744872008597 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 744872008598 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 744872008599 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 744872008600 anti sigma factor interaction site; other site 744872008601 regulatory phosphorylation site [posttranslational modification]; other site 744872008602 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 744872008603 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 744872008604 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 744872008605 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 744872008606 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 744872008607 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 744872008608 ATP-binding site [chemical binding]; other site 744872008609 Sugar specificity; other site 744872008610 Pyrimidine base specificity; other site 744872008611 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 744872008612 Na2 binding site [ion binding]; other site 744872008613 putative substrate binding site 1 [chemical binding]; other site 744872008614 Na binding site 1 [ion binding]; other site 744872008615 putative substrate binding site 2 [chemical binding]; other site 744872008616 chaperone protein DnaJ; Provisional; Region: PRK10767 744872008617 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 744872008618 HSP70 interaction site [polypeptide binding]; other site 744872008619 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 744872008620 substrate binding site [polypeptide binding]; other site 744872008621 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 744872008622 Zn binding sites [ion binding]; other site 744872008623 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 744872008624 dimer interface [polypeptide binding]; other site 744872008625 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 744872008626 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 744872008627 nucleotide binding site [chemical binding]; other site 744872008628 NEF interaction site [polypeptide binding]; other site 744872008629 SBD interface [polypeptide binding]; other site 744872008630 GrpE; Region: GrpE; pfam01025 744872008631 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 744872008632 dimer interface [polypeptide binding]; other site 744872008633 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 744872008634 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 744872008635 Bacitracin resistance protein BacA; Region: BacA; pfam02673 744872008636 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 744872008637 S4 domain; Region: S4; pfam01479 744872008638 RNA binding surface [nucleotide binding]; other site 744872008639 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 744872008640 active site 744872008641 uracil binding [chemical binding]; other site 744872008642 xylose isomerase; Provisional; Region: PRK05474 744872008643 xylose isomerase; Region: xylose_isom_A; TIGR02630 744872008644 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 744872008645 N- and C-terminal domain interface [polypeptide binding]; other site 744872008646 D-xylulose kinase; Region: XylB; TIGR01312 744872008647 active site 744872008648 MgATP binding site [chemical binding]; other site 744872008649 catalytic site [active] 744872008650 metal binding site [ion binding]; metal-binding site 744872008651 xylulose binding site [chemical binding]; other site 744872008652 putative homodimer interface [polypeptide binding]; other site 744872008653 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 744872008654 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872008655 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 744872008656 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 744872008657 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 744872008658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872008659 active site 744872008660 phosphorylation site [posttranslational modification] 744872008661 intermolecular recognition site; other site 744872008662 dimerization interface [polypeptide binding]; other site 744872008663 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 744872008664 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 744872008665 putative active site [active] 744872008666 heme pocket [chemical binding]; other site 744872008667 PAS domain; Region: PAS; smart00091 744872008668 putative active site [active] 744872008669 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 744872008670 Histidine kinase; Region: HisKA_2; pfam07568 744872008671 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 744872008672 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872008673 ATP binding site [chemical binding]; other site 744872008674 Mg2+ binding site [ion binding]; other site 744872008675 G-X-G motif; other site 744872008676 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 744872008677 mce related protein; Region: MCE; pfam02470 744872008678 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 744872008679 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 744872008680 Walker A/P-loop; other site 744872008681 ATP binding site [chemical binding]; other site 744872008682 Q-loop/lid; other site 744872008683 ABC transporter signature motif; other site 744872008684 Walker B; other site 744872008685 D-loop; other site 744872008686 H-loop/switch region; other site 744872008687 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 744872008688 Permease; Region: Permease; pfam02405 744872008689 Tetratricopeptide repeat; Region: TPR_12; pfam13424 744872008690 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 744872008691 binding surface 744872008692 TPR motif; other site 744872008693 Tetratricopeptide repeat; Region: TPR_12; pfam13424 744872008694 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 744872008695 mce related protein; Region: MCE; pfam02470 744872008696 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 744872008697 dimer interface [polypeptide binding]; other site 744872008698 putative CheW interface [polypeptide binding]; other site 744872008699 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872008700 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 744872008701 Walker A/P-loop; other site 744872008702 ATP binding site [chemical binding]; other site 744872008703 Q-loop/lid; other site 744872008704 ABC transporter signature motif; other site 744872008705 Walker B; other site 744872008706 D-loop; other site 744872008707 H-loop/switch region; other site 744872008708 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 744872008709 Permease; Region: Permease; pfam02405 744872008710 Sporulation and spore germination; Region: Germane; pfam10646 744872008711 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 744872008712 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 744872008713 putative active site [active] 744872008714 metal binding site [ion binding]; metal-binding site 744872008715 homodimer binding site [polypeptide binding]; other site 744872008716 ribonuclease Y; Region: RNase_Y; TIGR03319 744872008717 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 744872008718 Zn2+ binding site [ion binding]; other site 744872008719 Mg2+ binding site [ion binding]; other site 744872008720 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 744872008721 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 744872008722 Walker A/P-loop; other site 744872008723 ATP binding site [chemical binding]; other site 744872008724 Q-loop/lid; other site 744872008725 ABC transporter signature motif; other site 744872008726 Walker B; other site 744872008727 D-loop; other site 744872008728 H-loop/switch region; other site 744872008729 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 744872008730 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 744872008731 CTP synthetase; Validated; Region: pyrG; PRK05380 744872008732 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 744872008733 Catalytic site [active] 744872008734 active site 744872008735 UTP binding site [chemical binding]; other site 744872008736 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 744872008737 active site 744872008738 putative oxyanion hole; other site 744872008739 catalytic triad [active] 744872008740 Bifunctional nuclease; Region: DNase-RNase; cl00553 744872008741 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 744872008742 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 744872008743 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 744872008744 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 744872008745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872008746 active site 744872008747 phosphorylation site [posttranslational modification] 744872008748 intermolecular recognition site; other site 744872008749 dimerization interface [polypeptide binding]; other site 744872008750 CheB methylesterase; Region: CheB_methylest; pfam01339 744872008751 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 744872008752 Transglycosylase; Region: Transgly; cl17702 744872008753 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 744872008754 TPR repeat; Region: TPR_11; pfam13414 744872008755 binding surface 744872008756 TPR motif; other site 744872008757 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 744872008758 binding surface 744872008759 TPR motif; other site 744872008760 TPR repeat; Region: TPR_11; pfam13414 744872008761 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 744872008762 binding surface 744872008763 Tetratricopeptide repeat; Region: TPR_16; pfam13432 744872008764 TPR motif; other site 744872008765 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 744872008766 active site 744872008767 metal binding site [ion binding]; metal-binding site 744872008768 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 744872008769 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 744872008770 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 744872008771 putative dimer interface [polypeptide binding]; other site 744872008772 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 744872008773 catalytic loop [active] 744872008774 iron binding site [ion binding]; other site 744872008775 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 744872008776 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 744872008777 4Fe-4S binding domain; Region: Fer4; pfam00037 744872008778 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 744872008779 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 744872008780 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 744872008781 dimer interface [polypeptide binding]; other site 744872008782 [2Fe-2S] cluster binding site [ion binding]; other site 744872008783 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 744872008784 SLBB domain; Region: SLBB; pfam10531 744872008785 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 744872008786 4Fe-4S binding domain; Region: Fer4; pfam00037 744872008787 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 744872008788 4Fe-4S binding domain; Region: Fer4_6; pfam12837 744872008789 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 744872008790 dimer interface [polypeptide binding]; other site 744872008791 [2Fe-2S] cluster binding site [ion binding]; other site 744872008792 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872008793 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872008794 ATP binding site [chemical binding]; other site 744872008795 Mg2+ binding site [ion binding]; other site 744872008796 G-X-G motif; other site 744872008797 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 744872008798 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 744872008799 putative dimer interface [polypeptide binding]; other site 744872008800 [2Fe-2S] cluster binding site [ion binding]; other site 744872008801 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 744872008802 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 744872008803 acyl-activating enzyme (AAE) consensus motif; other site 744872008804 putative AMP binding site [chemical binding]; other site 744872008805 putative active site [active] 744872008806 putative CoA binding site [chemical binding]; other site 744872008807 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 744872008808 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 744872008809 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 744872008810 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 744872008811 active site 744872008812 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 744872008813 active site 744872008814 DRTGG domain; Region: DRTGG; pfam07085 744872008815 FOG: CBS domain [General function prediction only]; Region: COG0517 744872008816 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 744872008817 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 744872008818 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 744872008819 ATP binding site [chemical binding]; other site 744872008820 G-X-G motif; other site 744872008821 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 744872008822 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 744872008823 motif II; other site 744872008824 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 744872008825 DRTGG domain; Region: DRTGG; pfam07085 744872008826 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 744872008827 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 744872008828 trimer interface [polypeptide binding]; other site 744872008829 putative metal binding site [ion binding]; other site 744872008830 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 744872008831 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 744872008832 P-loop; other site 744872008833 Magnesium ion binding site [ion binding]; other site 744872008834 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 744872008835 Magnesium ion binding site [ion binding]; other site 744872008836 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 744872008837 ParB-like nuclease domain; Region: ParBc; pfam02195 744872008838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 744872008839 active site 744872008840 phosphorylation site [posttranslational modification] 744872008841 intermolecular recognition site; other site 744872008842 dimerization interface [polypeptide binding]; other site 744872008843 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 744872008844 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 744872008845 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 744872008846 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 744872008847 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 744872008848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 744872008849 catalytic residue [active] 744872008850 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 744872008851 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 744872008852 active site 744872008853 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 744872008854 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 744872008855 Walker A motif; other site 744872008856 ATP binding site [chemical binding]; other site 744872008857 Walker B motif; other site 744872008858 arginine finger; other site 744872008859 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 744872008860 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 744872008861 Walker A motif; other site 744872008862 ATP binding site [chemical binding]; other site 744872008863 Walker B motif; other site 744872008864 arginine finger; other site 744872008865 Protein of unknown function DUF262; Region: DUF262; pfam03235 744872008866 Uncharacterized conserved protein [Function unknown]; Region: COG1479 744872008867 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 744872008868 Predicted transcriptional regulator [Transcription]; Region: COG2378 744872008869 HTH domain; Region: HTH_11; pfam08279 744872008870 WYL domain; Region: WYL; pfam13280 744872008871 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 744872008872 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872008873 Walker A/P-loop; other site 744872008874 ATP binding site [chemical binding]; other site 744872008875 Q-loop/lid; other site 744872008876 ABC transporter signature motif; other site 744872008877 Walker B; other site 744872008878 D-loop; other site 744872008879 H-loop/switch region; other site 744872008880 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872008881 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 744872008882 TM-ABC transporter signature motif; other site 744872008883 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 744872008884 zinc binding site [ion binding]; other site 744872008885 putative ligand binding site [chemical binding]; other site 744872008886 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 744872008887 Malic enzyme, N-terminal domain; Region: malic; pfam00390 744872008888 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 744872008889 putative NAD(P) binding site [chemical binding]; other site 744872008890 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 744872008891 putative active site [active] 744872008892 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 744872008893 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 744872008894 prolyl-tRNA synthetase; Provisional; Region: PRK09194 744872008895 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 744872008896 dimer interface [polypeptide binding]; other site 744872008897 motif 1; other site 744872008898 active site 744872008899 motif 2; other site 744872008900 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 744872008901 putative deacylase active site [active] 744872008902 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 744872008903 active site 744872008904 motif 3; other site 744872008905 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 744872008906 anticodon binding site; other site 744872008907 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 744872008908 phosphate binding site [ion binding]; other site 744872008909 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 744872008910 homodimer interface [polypeptide binding]; other site 744872008911 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 744872008912 active site pocket [active] 744872008913 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cd00562 744872008914 serine/threonine protein kinase; Provisional; Region: PRK11768 744872008915 Phosphotransferase enzyme family; Region: APH; pfam01636 744872008916 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 744872008917 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 744872008918 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872008919 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 744872008920 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 744872008921 TM-ABC transporter signature motif; other site 744872008922 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 744872008923 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 744872008924 Walker A/P-loop; other site 744872008925 ATP binding site [chemical binding]; other site 744872008926 Q-loop/lid; other site 744872008927 ABC transporter signature motif; other site 744872008928 Walker B; other site 744872008929 D-loop; other site 744872008930 H-loop/switch region; other site 744872008931 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872008932 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 744872008933 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 744872008934 putative ligand binding site [chemical binding]; other site 744872008935 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 744872008936 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 744872008937 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 744872008938 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 744872008939 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 744872008940 Walker A/P-loop; other site 744872008941 ATP binding site [chemical binding]; other site 744872008942 Q-loop/lid; other site 744872008943 ABC transporter signature motif; other site 744872008944 Walker B; other site 744872008945 D-loop; other site 744872008946 H-loop/switch region; other site 744872008947 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 744872008948 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 744872008949 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 744872008950 intersubunit interface [polypeptide binding]; other site 744872008951 active site 744872008952 Zn2+ binding site [ion binding]; other site 744872008953 L-arabinose isomerase; Provisional; Region: PRK02929 744872008954 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 744872008955 hexamer (dimer of trimers) interface [polypeptide binding]; other site 744872008956 trimer interface [polypeptide binding]; other site 744872008957 substrate binding site [chemical binding]; other site 744872008958 Mn binding site [ion binding]; other site 744872008959 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_6; cd13146 744872008960 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 744872008961 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 744872008962 Putative esterase; Region: Esterase; pfam00756 744872008963 Uncharacterized conserved protein [Function unknown]; Region: COG2006 744872008964 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 744872008965 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 744872008966 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 744872008967 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 744872008968 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 744872008969 Beta-Casp domain; Region: Beta-Casp; smart01027 744872008970 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 744872008971 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 744872008972 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 744872008973 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 744872008974 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 744872008975 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 744872008976 NAD binding site [chemical binding]; other site 744872008977 ligand binding site [chemical binding]; other site 744872008978 catalytic site [active] 744872008979 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 744872008980 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 744872008981 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 744872008982 substrate binding pocket [chemical binding]; other site 744872008983 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 744872008984 B12 binding site [chemical binding]; other site 744872008985 cobalt ligand [ion binding]; other site 744872008986 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 744872008987 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 744872008988 active site 744872008989 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 744872008990 active site 2 [active] 744872008991 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 744872008992 FAD binding site [chemical binding]; other site 744872008993 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 744872008994 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 744872008995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 744872008996 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 744872008997 Walker A/P-loop; other site 744872008998 ATP binding site [chemical binding]; other site 744872008999 Q-loop/lid; other site 744872009000 ABC transporter signature motif; other site 744872009001 Walker B; other site 744872009002 D-loop; other site 744872009003 H-loop/switch region; other site 744872009004 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 744872009005 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 744872009006 ligand binding site [chemical binding]; other site 744872009007 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 744872009008 dimer interface [polypeptide binding]; other site 744872009009 phosphorylation site [posttranslational modification] 744872009010 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 744872009011 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872009012 ATP binding site [chemical binding]; other site 744872009013 Mg2+ binding site [ion binding]; other site 744872009014 G-X-G motif; other site 744872009015 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 744872009016 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 744872009017 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 744872009018 active site 744872009019 catalytic site [active] 744872009020 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 744872009021 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 744872009022 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 744872009023 ligand binding site [chemical binding]; other site 744872009024 flexible hinge region; other site 744872009025 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl17317 744872009026 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 744872009027 TrkA-N domain; Region: TrkA_N; pfam02254 744872009028 TrkA-C domain; Region: TrkA_C; pfam02080 744872009029 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 744872009030 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 744872009031 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 744872009032 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 744872009033 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 744872009034 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 744872009035 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872009036 dimer interface [polypeptide binding]; other site 744872009037 conserved gate region; other site 744872009038 putative PBP binding loops; other site 744872009039 ABC-ATPase subunit interface; other site 744872009040 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 744872009041 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 744872009042 dimer interface [polypeptide binding]; other site 744872009043 conserved gate region; other site 744872009044 putative PBP binding loops; other site 744872009045 ABC-ATPase subunit interface; other site 744872009046 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 744872009047 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 744872009048 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 744872009049 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 744872009050 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 744872009051 putative active site [active] 744872009052 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 744872009053 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 744872009054 putative NAD(P) binding site [chemical binding]; other site 744872009055 catalytic Zn binding site [ion binding]; other site 744872009056 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 744872009057 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 744872009058 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 744872009059 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 744872009060 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 744872009061 Walker A motif; other site 744872009062 ATP binding site [chemical binding]; other site 744872009063 Walker B motif; other site 744872009064 arginine finger; other site 744872009065 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 744872009066 Protein of unknown function DUF58; Region: DUF58; pfam01882 744872009067 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 744872009068 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 744872009069 TPR repeat; Region: TPR_11; pfam13414 744872009070 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 744872009071 binding surface 744872009072 TPR motif; other site 744872009073 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 744872009074 binding surface 744872009075 TPR motif; other site 744872009076 Uncharacterized conserved protein [Function unknown]; Region: COG3339 744872009077 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 744872009078 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 744872009079 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 744872009080 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 744872009081 acyl-activating enzyme (AAE) consensus motif; other site 744872009082 acyl-activating enzyme (AAE) consensus motif; other site 744872009083 putative AMP binding site [chemical binding]; other site 744872009084 putative active site [active] 744872009085 putative CoA binding site [chemical binding]; other site 744872009086 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 744872009087 S-adenosylmethionine synthetase; Validated; Region: PRK05250 744872009088 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 744872009089 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 744872009090 hypothetical protein; Provisional; Region: PRK09256 744872009091 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 744872009092 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 744872009093 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 744872009094 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 744872009095 Coenzyme A binding pocket [chemical binding]; other site 744872009096 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 744872009097 NlpC/P60 family; Region: NLPC_P60; cl17555 744872009098 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 744872009099 PemK-like protein; Region: PemK; pfam02452 744872009100 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 744872009101 DNA gyrase subunit A; Validated; Region: PRK05560 744872009102 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 744872009103 CAP-like domain; other site 744872009104 active site 744872009105 primary dimer interface [polypeptide binding]; other site 744872009106 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 744872009107 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 744872009108 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 744872009109 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 744872009110 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 744872009111 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 744872009112 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 744872009113 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 744872009114 Mg2+ binding site [ion binding]; other site 744872009115 G-X-G motif; other site 744872009116 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 744872009117 anchoring element; other site 744872009118 dimer interface [polypeptide binding]; other site 744872009119 ATP binding site [chemical binding]; other site 744872009120 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 744872009121 active site 744872009122 putative metal-binding site [ion binding]; other site 744872009123 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986