-- dump date 20111121_011429 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1538000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1538000002 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538000003 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...; Region: AAA; cd00009 1538000004 Walker A motif; other site 1538000005 ATP binding site; other site 1538000006 Walker B motif; other site 1538000007 arginine finger; other site 1538000008 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 1538000009 DnaA box-binding interface; other site 1538000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1538000011 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...; Region: beta_clamp; cd00140 1538000012 putative DNA binding surface; other site 1538000013 dimer interface; other site 1538000014 beta-clamp/clamp loader binding surface; other site 1538000015 beta-clamp/translesion DNA polymerase binding surface; other site 1538000016 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 1538000017 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 1538000018 Walker A/P-loop; other site 1538000019 ATP binding site; other site 1538000020 Q-loop/lid; other site 1538000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538000022 ABC transporter signature motif; other site 1538000023 Walker B; other site 1538000024 D-loop; other site 1538000025 H-loop/switch region; other site 1538000026 DNA gyrase, B subunit; Region: gyrB; TIGR01059 1538000027 Histidine kinase-like ATPases; This family includes several ATP-binding 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 1538000028 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 1538000029 anchoring element; other site 1538000030 dimer interface; other site 1538000031 ATP binding site; other site 1538000032 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1538000033 active site 1538000034 putative metal-binding site; other site 1538000035 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1538000036 DNA gyrase subunit A; Validated; Region: PRK05560 1538000037 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 in...; Region: TOP4c; cd00187 1538000038 CAP-like domain; other site 1538000039 active site 1538000040 primary dimer interface; other site 1538000041 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1538000042 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1538000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1538000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1538000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1538000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1538000047 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1538000048 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1538000049 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538000050 3H domain; Region: 3H; pfam02829 1538000051 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 1538000052 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 1538000053 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1538000054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538000055 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 1538000056 Protein of unknown function (DUF1667); Region: DUF1667; cl01591 1538000057 seryl-tRNA synthetase; Provisional; Region: PRK05431 1538000058 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1538000059 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 1538000060 dimer interface; other site 1538000061 active site 1538000062 motif 1; other site 1538000063 motif 2; other site 1538000064 motif 3; other site 1538000065 Phage integrase family; Region: Phage_integrase; pfam00589 1538000066 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1538000067 Int/Topo IB signature motif; other site 1538000068 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 1538000069 non-specific DNA binding site; other site 1538000070 salt bridge; other site 1538000071 sequence-specific DNA binding site; other site 1538000072 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 1538000073 non-specific DNA binding site; other site 1538000074 salt bridge; other site 1538000075 sequence-specific DNA binding site; other site 1538000076 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 1538000077 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1538000078 Uncharacterized conserved protein [Function unknown]; Region: COG5484 1538000079 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...; Region: Sigma70_r4; cl01055 1538000080 Terminase small subunit; Region: Terminase_2; cl01513 1538000081 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1538000082 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1538000083 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 1538000084 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 1538000085 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1538000086 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 1538000087 Virulence protein [General function prediction only]; Region: COG3943 1538000088 Coat F domain; Region: Coat_F; cl02368 1538000089 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 1538000090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538000091 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1538000092 Coenzyme A binding pocket; other site 1538000093 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538000094 Bacterial transcriptional regulator; Region: IclR; pfam01614 1538000095 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1538000096 Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family...; Region: DHDPS-like; cd00408 1538000097 inhibitor site; inhibition site 1538000098 active site 1538000099 dimer interface; other site 1538000100 catalytic residue; other site 1538000101 Dehydratase family; Region: ILVD_EDD; cl00340 1538000102 probable dehydratase, YjhG/YagF family; Region: yjhG_yagF; TIGR03432 1538000103 gluconate transporter; Region: gntP; TIGR00791 1538000104 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; cl09110 1538000105 Cupin domain; Region: Cupin_2; cl09118 1538000106 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538000107 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1538000108 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538000109 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 1538000110 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 1538000111 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1538000112 active site 1538000113 motif I; other site 1538000114 motif II; other site 1538000115 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; cl11391 1538000116 hypothetical protein; Provisional; Region: PRK08185 1538000117 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...; Region: TBP_aldolase_IIB; cd00947 1538000118 intersubunit interface; other site 1538000119 active site 1538000120 zinc binding site; other site 1538000121 Na+ binding site; other site 1538000122 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 1538000123 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 1538000124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538000125 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 1538000126 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538000127 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538000128 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1538000129 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1538000130 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 1538000131 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1538000132 nucleoside/Zn binding site; other site 1538000133 dimer interface; other site 1538000134 catalytic motif; other site 1538000135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200; cl01717 1538000136 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538000137 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538000138 Walker A/P-loop; other site 1538000139 ATP binding site; other site 1538000140 Q-loop/lid; other site 1538000141 ABC transporter signature motif; other site 1538000142 Walker B; other site 1538000143 D-loop; other site 1538000144 H-loop/switch region; other site 1538000145 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 trans-...; Region: HisKA; cd00082 1538000146 dimer interface; other site 1538000147 phosphorylation site 1538000148 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538000149 ATP binding site; other site 1538000150 Mg2+ binding site; other site 1538000151 G-X-G motif; other site 1538000152 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538000153 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538000154 active site 1538000155 phosphorylation site 1538000156 intermolecular recognition site; other site 1538000157 dimerization interface; other site 1538000158 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...; Region: trans_reg_C; cd00383 1538000159 DNA binding site 1538000160 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1538000161 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...; Region: AAA; cd00009 1538000162 Walker A motif; other site 1538000163 ATP binding site; other site 1538000164 Walker B motif; other site 1538000165 arginine finger; other site 1538000166 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1538000167 Uncharacterized BCR, YbaB family COG0718; Region: DUF149; cl00494 1538000168 recombination protein RecR; Reviewed; Region: recR; PRK00076 1538000169 RecR protein; Region: RecR; pfam02132 1538000170 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 1538000171 putative active site; other site 1538000172 putative metal-binding site; other site 1538000173 tetramer interface; other site 1538000174 Sugar fermentation stimulation protein; Region: SfsA; cl00647 1538000175 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 1538000176 putative NADH binding site; other site 1538000177 putative active site; other site 1538000178 nudix motif; other site 1538000179 putative metal binding site; other site 1538000180 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; cl09108 1538000181 catalytic residue; other site 1538000182 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538000183 acetyl-CoA decarbonylase/synthase complex subunit alpha; Validated; Region: PRK00941 1538000184 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 alpha-; Region: HCP_like; cl00255 1538000185 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 1538000186 pyridoxal 5'-phosphate binding pocket; other site 1538000187 catalytic residue; other site 1538000188 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1538000189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538000190 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 1538000191 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1538000192 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538000193 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1538000194 Zn2+ binding site; other site 1538000195 Mg2+ binding site; other site 1538000196 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538000197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538000198 active site 1538000199 phosphorylation site 1538000200 intermolecular recognition site; other site 1538000201 dimerization interface; other site 1538000202 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...; Region: trans_reg_C; cd00383 1538000203 DNA binding site 1538000204 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 trans-...; Region: HisKA; cd00082 1538000205 dimer interface; other site 1538000206 phosphorylation site 1538000207 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538000208 ATP binding site; other site 1538000209 Mg2+ binding site; other site 1538000210 G-X-G motif; other site 1538000211 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538000212 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538000213 Walker A/P-loop; other site 1538000214 ATP binding site; other site 1538000215 Q-loop/lid; other site 1538000216 ABC transporter signature motif; other site 1538000217 Walker B; other site 1538000218 D-loop; other site 1538000219 H-loop/switch region; other site 1538000220 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1538000221 Predicted permease; Region: FtsX; cl11418 1538000222 Predicted permease; Region: FtsX; cl11418 1538000223 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1538000224 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538000225 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1538000226 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538000227 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538000228 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1538000229 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538000230 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538000231 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 1538000232 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 1538000233 pyridoxal 5'-phosphate binding pocket; other site 1538000234 catalytic residue; other site 1538000235 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1538000236 PPIC-type PPIASE domain; Region: Rotamase; cl08278 1538000237 Aldose 1-epimerase; Region: Aldose_epim; cl00476 1538000238 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 1538000239 L-arabinose isomerase; Provisional; Region: PRK02929 1538000240 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...; Region: L-fuc_L-ara-isomerases; cl00947 1538000241 hexamer (dimer of trimers) interface; other site 1538000242 trimer interface; other site 1538000243 substrate binding site; other site 1538000244 Mn binding site; other site 1538000245 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II)...; Region: Aldolase_II; cd00398 1538000246 intersubunit interface; other site 1538000247 active site 1538000248 Zn2+ binding site; other site 1538000249 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1538000250 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 1538000251 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 1538000252 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538000253 DNA binding site 1538000254 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1538000255 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 1538000256 putative dimerization interface; other site 1538000257 putative ligand binding site; other site 1538000258 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 1538000259 putative transporter; Provisional; Region: PRK11462 1538000260 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1538000261 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 1538000262 ligand binding site; other site 1538000263 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1538000264 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 1538000265 Walker A/P-loop; other site 1538000266 ATP binding site; other site 1538000267 Q-loop/lid; other site 1538000268 ABC transporter signature motif; other site 1538000269 Walker B; other site 1538000270 D-loop; other site 1538000271 H-loop/switch region; other site 1538000272 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 1538000273 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 1538000274 TM-ABC transporter signature motif; other site 1538000275 NAD-dependent deacetylase; Provisional; Region: PRK14138 1538000276 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 1538000277 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1538000278 dimer interface; other site 1538000279 catalytic triad; other site 1538000280 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1538000281 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 1538000282 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 1538000283 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1538000284 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and...; Region: Orn_deC_like; cd00615 1538000285 homodimer interface; other site 1538000286 pyridoxal 5'-phosphate binding site; other site 1538000287 catalytic residue; other site 1538000288 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1538000289 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1538000290 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...; Region: TMPK; cd01672 1538000291 TMP-binding site; other site 1538000292 ATP-binding site; other site 1538000293 Nitrogen regulatory protein P-II; Region: P-II; cl00412 1538000294 DNA polymerase III subunit delta'; Validated; Region: PRK05564 1538000295 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538000296 Walker A motif; other site 1538000297 ATP binding site; other site 1538000298 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538000299 Walker B motif; other site 1538000300 PSP1 C-terminal conserved region; Region: PSP1; cl00770 1538000301 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 1538000302 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 alpha-; Region: HCP_like; cl00255 1538000303 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1538000304 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1538000305 flagellar motor protein MotD; Reviewed; Region: PRK09038 1538000306 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1538000307 ligand binding site; other site 1538000308 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1538000309 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 1538000310 S-adenosylmethionine binding site; other site 1538000311 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 1538000312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1538000313 NlpC/P60 family; Region: NLPC_P60; cl11438 1538000314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1538000315 NlpC/P60 family; Region: NLPC_P60; cl11438 1538000316 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 1538000317 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1538000318 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1538000319 active site 1538000320 NTP binding site; other site 1538000321 metal binding triad; metal-binding site 1538000322 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1538000323 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1538000324 phage shock protein PspA; Provisional; Region: PRK10698 1538000325 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1538000326 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...; Region: MECDP_synthase; cd00554 1538000327 homotrimer interaction site; other site 1538000328 zinc binding site; other site 1538000329 CDP-binding sites; other site 1538000330 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 1538000331 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 1538000332 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1538000333 B3/4 domain; Region: B3_4; cl11458 1538000334 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 1538000335 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1538000336 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1538000337 Transposase; Region: Transposase_9; pfam01548 1538000338 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1538000339 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 1538000340 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1538000341 Nucleoside recognition; Region: Gate; cl00486 1538000342 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 1538000343 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1538000344 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1538000345 HIGH motif; other site 1538000346 active site 1538000347 KMSKS motif; other site 1538000348 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1538000349 tRNA binding surface; other site 1538000350 anticodon binding site; other site 1538000351 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1538000352 putative tRNA-binding site; other site 1538000353 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1538000354 active site 1538000355 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1538000356 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1538000357 G5 domain; Region: G5; pfam07501 1538000358 3D domain; Region: 3D; cl01439 1538000359 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1538000360 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in...; Region: TOPRIM_RNase_M5_like; cd01027 1538000361 putative active site; other site 1538000362 putative metal binding site; other site 1538000363 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; cl12011 1538000364 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 1538000365 Walker A motif; other site 1538000366 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1538000367 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 1538000368 ATP cone domain; Region: ATP-cone; pfam03477 1538000369 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1538000370 effector binding site; other site 1538000371 active site 1538000372 Zn binding site; other site 1538000373 glycine loop; other site 1538000374 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 1538000375 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 1538000376 FeS/SAM binding site; other site 1538000377 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 1538000378 dimerization interface; other site 1538000379 putative DNA binding site; other site 1538000380 putative Zn2+ binding site; other site 1538000381 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538000382 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1538000383 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 1538000384 active site 1538000385 metal-binding site 1538000386 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1538000387 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 1538000388 active site 1538000389 metal-binding site 1538000390 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1538000391 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1538000392 HIGH motif; other site 1538000393 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1538000394 active site 1538000395 KMSKS motif; other site 1538000396 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1538000397 tRNA binding surface; other site 1538000398 anticodon binding site; other site 1538000399 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1538000400 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1538000401 DNA binding site 1538000402 domain linker motif; other site 1538000403 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1538000404 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1538000405 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; cl12029 1538000406 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1538000407 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1538000408 putative active site; other site 1538000409 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1538000410 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1538000411 Substrate binding site; other site 1538000412 Cupin domain; Region: Cupin_2; cl09118 1538000413 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 1538000414 Alkyladenine DNA glycosylase (AAG), also known as 3-methyladenine DNA glycosylase, catalyzes the first step in base excision repair (BER) by cleaving damaged DNA bases within double-stranded DNA to produce an abasic site. AAG bends DNA by intercalating...; Region: AAG; cd00540 1538000415 active site 1538000416 Active site - hydrogen bonding network; active site 1538000417 Glycosylase - DNA interaction site; other site 1538000418 Active site - substrate stacking residues; active site 1538000419 Active site - intercalating residue; active site 1538000420 Uncharacterized conserved protein [Function unknown]; Region: COG1641; cl03398 1538000421 Protein of unknown function DUF111; Region: DUF111; pfam01969 1538000422 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1538000423 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 1538000424 FeS/SAM binding site; other site 1538000425 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538000426 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1538000427 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 1538000428 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1538000429 substrate binding site; other site 1538000430 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1538000431 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1538000432 active site 1538000433 ATP binding site; other site 1538000434 substrate binding site; other site 1538000435 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 1538000436 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1538000437 YabG peptidase U57; Region: Peptidase_U57; cl05250 1538000438 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 1538000439 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 1538000440 putative peptidoglycan binding site; other site 1538000441 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1538000442 proposed catalytic triad; other site 1538000443 active site nucleophile 1538000444 cyanophycin synthetase; Provisional; Region: PRK14016 1538000445 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 1538000446 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1538000447 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1538000448 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1538000449 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1538000450 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1538000451 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538000452 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 1538000453 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 1538000454 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 1538000455 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 1538000456 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 1538000457 germination protein YpeB; Region: spore_YpeB; TIGR02889 1538000458 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 1538000459 CTP synthetase; Validated; Region: pyrG; PRK05380 1538000460 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...; Region: CTGs; cd03113 1538000461 Catalytic site; other site 1538000462 active site 1538000463 UTP binding site; other site 1538000464 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1538000465 active site 1538000466 putative oxyanion hole; other site 1538000467 catalytic triad; other site 1538000468 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1538000469 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1538000470 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...; Region: Rho_CSD; cd04459 1538000471 RNA binding site; other site 1538000472 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...; Region: rho_factor; cd01128 1538000473 multimer interface; other site 1538000474 Walker A motif; other site 1538000475 ATP binding site; other site 1538000476 Walker B motif; other site 1538000477 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 1538000478 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 1538000479 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1538000480 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 1538000481 S-adenosylmethionine binding site; other site 1538000482 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1538000483 RF-1 domain; Region: RF-1; cl02875 1538000484 RF-1 domain; Region: RF-1; cl02875 1538000485 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1538000486 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 1538000487 SUA5 domain; Region: SUA5; pfam03481 1538000488 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1538000489 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1538000490 active site 1538000491 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 1538000492 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 1538000493 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 1538000494 catalytic motif; other site 1538000495 Zn binding site; other site 1538000496 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1538000497 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 1538000498 Mg++ binding site; other site 1538000499 putative catalytic motif; other site 1538000500 substrate binding site; other site 1538000501 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 1538000502 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 1538000503 active site 1538000504 homodimer interface; other site 1538000505 ATP synthase A chain; Region: ATP-synt_A; cl00413 1538000506 ATP synthase subunit C; Region: ATP-synt_C; cl00466 1538000507 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 1538000508 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl00491 1538000509 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1538000510 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1538000511 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1538000512 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 1538000513 beta subunit interaction interface; other site 1538000514 Walker A motif; other site 1538000515 ATP binding site; other site 1538000516 Walker B motif; other site 1538000517 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1538000518 ATP synthase; Region: ATP-synt; cl00365 1538000519 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1538000520 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1538000521 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 1538000522 alpha subunit interaction interface; other site 1538000523 Walker A motif; other site 1538000524 ATP binding site; other site 1538000525 Walker B motif; other site 1538000526 inhibitor binding site; inhibition site 1538000527 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1538000528 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13450 1538000529 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 1538000530 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1538000531 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 1538000532 hinge; other site 1538000533 active site 1538000534 Stage II sporulation protein; Region: SpoIID; cl07201 1538000535 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 1538000536 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 1538000537 Peptidase family M23; Region: Peptidase_M23; pfam01551 1538000538 Stage III sporulation protein D; Region: SpoIIID; cl11824 1538000539 rod shape-determining protein Mbl; Provisional; Region: PRK13928 1538000540 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 1538000541 ATP binding site; other site 1538000542 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 1538000543 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1538000544 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1538000545 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1538000546 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1538000547 RecD/TraA family; Region: recD_rel; TIGR01448 1538000548 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1538000549 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1538000550 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 1538000551 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 1538000552 30S subunit binding site; other site 1538000553 SecA DEAD-like domain; Region: SecA_DEAD; pfam07517 1538000554 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; cl12029 1538000555 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 1538000556 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 1538000557 nucleotide binding region; other site 1538000558 ATP-binding site; other site 1538000559 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 1538000560 hypothetical protein; Provisional; Region: PRK00183 1538000561 SEC-C motif; Region: SEC-C; cl12132 1538000562 peptide chain release factor 2; Provisional; Region: PRK05589 1538000563 RF-1 domain; Region: RF-1; cl02875 1538000564 RF-1 domain; Region: RF-1; cl02875 1538000565 H+ Antiporter protein; Region: 2A0121; TIGR00900 1538000566 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 1538000567 putative substrate translocation pore; other site 1538000568 glutamate dehydrogenase; Provisional; Region: PRK09414 1538000569 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 1538000570 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1538000571 NAD(P) binding site; other site 1538000572 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538000573 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1538000574 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1538000575 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 1538000576 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 1538000577 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...; Region: S1_Tex; cd05685 1538000578 RNA binding site; other site 1538000579 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 1538000580 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 1538000581 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1538000582 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1538000583 active site 1538000584 metal-binding site 1538000585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 1538000586 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 1538000587 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1538000588 synthetase active site; other site 1538000589 NTP binding site; other site 1538000590 metal-binding site 1538000591 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1538000592 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1538000593 HIGH motif; other site 1538000594 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1538000595 KMSKS motif; other site 1538000596 active site 1538000597 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1538000598 tRNA binding surface; other site 1538000599 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...; Region: DnaJ; cd06257 1538000600 HSP70 interaction site; other site 1538000601 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 1538000602 putative active site; other site 1538000603 putative triphosphate binding site; other site 1538000604 dimer interface; other site 1538000605 putative metal binding residues; other site 1538000606 tagatose-bisphosphate aldolase; Reviewed; Region: gatY; PRK09195 1538000607 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...; Region: TBP_aldolase_IIB; cd00947 1538000608 intersubunit interface; other site 1538000609 active site 1538000610 zinc binding site; other site 1538000611 Na+ binding site; other site 1538000612 Protein of unknown function (DUF421); Region: DUF421; cl00990 1538000613 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1538000614 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1538000615 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 1538000616 active site 1538000617 AIR carboxylase; Region: AIRC; cl00310 1538000618 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 1538000619 anti sigma factor interaction site; other site 1538000620 regulatory phosphorylation site; other site 1538000621 Cache domain; Region: Cache_1; pfam02743 1538000622 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 connected by an extended linker. The...; Region: HAMP; cd06225 1538000623 dimerization interface; other site 1538000624 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538000625 Histidine kinase-like ATPases; This family includes several ATP-binding 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 1538000626 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 1538000627 PAS fold; Region: PAS_4; pfam08448 1538000628 PAS domain S-box; Region: sensory_box; TIGR00229 1538000629 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 1538000630 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1538000631 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1538000632 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1538000633 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1538000634 FOG: CBS domain [General function prediction only]; Region: COG0517 1538000635 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-...; Region: CBS_pair_9; cd04622 1538000636 putative lipid kinase; Reviewed; Region: PRK13059 1538000637 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 1538000638 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 1538000639 hypothetical protein; Provisional; Region: PRK00955 1538000640 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1538000641 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1538000642 FOG: CBS domain [General function prediction only]; Region: COG0517 1538000643 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 1538000644 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 1538000645 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1538000646 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1538000647 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 1538000648 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 1538000649 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 1538000650 Carbohydrate kinase; Region: Carb_kinase; pfam01256 1538000651 putative substrate binding site; other site 1538000652 putative ATP binding site; other site 1538000653 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 1538000654 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 1538000655 PemK-like protein; Region: PemK; cl00995 1538000656 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 1538000657 TPP-binding site; other site 1538000658 dimer interface; other site 1538000659 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1538000660 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 1538000661 PYR/PP interface; other site 1538000662 dimer interface; other site 1538000663 TPP binding site; other site 1538000664 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1538000665 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1538000666 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538000667 Walker A/P-loop; other site 1538000668 ATP binding site; other site 1538000669 Q-loop/lid; other site 1538000670 ABC transporter signature motif; other site 1538000671 Walker B; other site 1538000672 D-loop; other site 1538000673 H-loop/switch region; other site 1538000674 Predicted permease; Region: FtsX; cl11418 1538000675 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1538000676 C-terminal peptidase (prc); Region: prc; TIGR00225 1538000677 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 1538000678 protein binding site; other site 1538000679 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1538000680 Catalytic dyad; other site 1538000681 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 C-...; Region: PDZ_serine_protease; cd00987 1538000682 excinuclease ABC subunit B; Provisional; Region: PRK05298 1538000683 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 1538000684 ATP binding site; other site 1538000685 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 1538000686 nucleotide binding region; other site 1538000687 ATP-binding site; other site 1538000688 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1538000689 UvrB/uvrC motif; Region: UVR; pfam02151 1538000690 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1538000691 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 1538000692 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 1538000693 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 1538000694 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1538000695 phosphopeptide binding site; other site 1538000696 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1538000697 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1538000698 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 1538000699 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 1538000700 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 1538000701 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1538000702 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 1538000703 UvrB/uvrC motif; Region: UVR; pfam02151 1538000704 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1538000705 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1538000706 FAD binding domain; Region: FAD_binding_4; cl10516 1538000707 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1538000708 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 1538000709 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1538000710 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 1538000711 phosphate binding site; other site 1538000712 putative substrate binding pocket; other site 1538000713 dimer interface; other site 1538000714 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1538000715 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1538000716 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 1538000717 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 1538000718 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1538000719 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...; Region: DnaE_OBF; cd04485 1538000720 generic binding surface II; other site 1538000721 generic binding surface I; other site 1538000722 6-phosphofructokinase; Provisional; Region: PRK03202 1538000723 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases...; Region: PFK; cl00204 1538000724 active site 1538000725 ADP/pyrophosphate binding site; other site 1538000726 dimerization interface; other site 1538000727 allosteric effector site; other site 1538000728 fructose-1,6-bisphosphate binding site; other site 1538000729 pyruvate kinase; Provisional; Region: PRK06354 1538000730 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; cl10032 1538000731 domain interfaces; other site 1538000732 active site 1538000733 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1538000734 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 1538000735 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 1538000736 S-adenosylmethionine binding site; other site 1538000737 Recombinase; Region: Recombinase; pfam07508 1538000738 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1538000739 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1538000740 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1538000741 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1538000742 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1538000743 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 1538000744 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 1538000745 ATP binding site; other site 1538000746 putative Mg++ binding site; other site 1538000747 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 1538000748 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07408 1538000749 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...; Region: Sigma70_r4; cl01055 1538000750 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 1538000751 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 1538000752 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 1538000753 active site 1538000754 DNA binding site 1538000755 catalytic site; other site 1538000756 BRO family, N-terminal domain; Region: Bro-N; pfam02498 1538000757 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 1538000758 Virulence-associated protein E; Region: VirE; cl12099 1538000759 VRR-NUC domain; Region: VRR_NUC; pfam08774 1538000760 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 1538000761 ATP binding site; other site 1538000762 putative Mg++ binding site; other site 1538000763 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; cl12029 1538000764 nucleotide binding region; other site 1538000765 ATP-binding site; other site 1538000766 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cd00085 1538000767 active site 1538000768 ParB-like nuclease domain; Region: ParBc; cl02129 1538000769 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; cl12011 1538000770 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 1538000771 Phage terminase, small subunit; Region: Terminase_4; cl01525 1538000772 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1538000773 Phage Terminase; Region: Terminase_1; pfam03354 1538000774 Phage portal protein; Region: Phage_portal; cl01923 1538000775 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 1538000776 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1538000777 oligomer interface; other site 1538000778 active site residues 1538000779 Phage capsid family; Region: Phage_capsid; pfam05065 1538000780 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1538000781 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 1538000782 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 1538000783 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 1538000784 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1538000785 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1538000786 Phage-related protein [Function unknown]; Region: COG5412 1538000787 Phage tail protein; Region: Sipho_tail; cl11462 1538000788 Protein of unknown function (DUF1142); Region: DUF1142; cl12123 1538000789 Integral membrane protein TerC family; Region: TerC; cl10468 1538000790 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1538000791 amidase catalytic site; other site 1538000792 Zn binding residues; other site 1538000793 substrate binding site; other site 1538000794 Bacterial SH3 domain; Region: SH3_3; cl02551 1538000795 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1538000796 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1538000797 catalytic residues; other site 1538000798 catalytic nucleophile; other site 1538000799 Recombinase; Region: Recombinase; pfam07508 1538000800 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1538000801 catalytic residues; other site 1538000802 catalytic nucleophile; other site 1538000803 Recombinase; Region: Recombinase; pfam07508 1538000804 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1538000805 nucleophile elbow; other site 1538000806 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1538000807 Propionate catabolism activator; Region: PrpR_N; pfam06506 1538000808 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1538000809 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538000810 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...; Region: AAA; cd00009 1538000811 Walker A motif; other site 1538000812 ATP binding site; other site 1538000813 Walker B motif; other site 1538000814 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538000815 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 1538000816 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1538000817 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1538000818 putative active site; other site 1538000819 metal-binding site 1538000820 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1538000821 Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family...; Region: DHDPS-like; cd00408 1538000822 inhibitor site; inhibition site 1538000823 active site 1538000824 dimer interface; other site 1538000825 catalytic residue; other site 1538000826 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1538000827 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 1538000828 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1538000829 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 1538000830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538000831 d-galactonate transporter; Region: 2A0114; TIGR00893 1538000832 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 1538000833 putative substrate translocation pore; other site 1538000834 Uncharacterized protein family (UPF0180); Region: UPF0180; cl04214 1538000835 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538000836 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538000837 EamA-like transporter family; Region: EamA; cl01037 1538000838 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538000839 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538000840 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538000841 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1538000842 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1538000843 Ligand binding site; other site 1538000844 Putative Catalytic site; other site 1538000845 DXD motif; other site 1538000846 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1538000847 Predicted integral membrane protein [Function unknown]; Region: COG5617 1538000848 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1538000849 exosortase family protein; Region: exosort_Gpos; TIGR03110 1538000850 putative glycosyltransferase TIGR03111; Region: glyc2_xrt_Gpos1 1538000851 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1538000852 DXD motif; other site 1538000853 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538000854 metal-binding site 1538000855 active site 1538000856 I-site; other site 1538000857 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1538000858 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1538000859 Nitrogen regulatory protein P-II; Region: P-II; cl00412 1538000860 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1538000861 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; cl12011 1538000862 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538000863 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538000864 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1538000865 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1538000866 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; cl12011 1538000867 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1538000868 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 1538000869 ATP binding site; other site 1538000870 Mg++ binding site; other site 1538000871 motif III; other site 1538000872 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 1538000873 nucleotide binding region; other site 1538000874 ATP-binding site; other site 1538000875 DbpA RNA binding domain; Region: DbpA; pfam03880 1538000876 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1538000877 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1538000878 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1538000879 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1538000880 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1538000881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538000882 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1538000883 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1538000884 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1538000885 putative NAD(P) binding site; other site 1538000886 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1538000887 Aspartase; Region: Aspartase; cd01357 1538000888 active sites 1538000889 tetramer interface; other site 1538000890 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538000891 Amino acid permease; Region: AA_permease; pfam00324 1538000892 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538000893 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1538000894 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538000895 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 1538000896 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1538000897 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 1538000898 active site 1538000899 motif I; other site 1538000900 motif II; other site 1538000901 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; cl11391 1538000902 Cupin domain; Region: Cupin_2; cl09118 1538000903 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1538000904 Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue...; Region: DHDPS; cd00950 1538000905 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1538000906 dimer interface; other site 1538000907 active site 1538000908 catalytic residue; other site 1538000909 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1538000910 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; cl01044 1538000911 SpoVR like protein; Region: SpoVR; pfam04293 1538000912 Protein of unknown function (DUF444); Region: DUF444; pfam04285 1538000913 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 1538000914 metal ion-dependent adhesion site (MIDAS); other site 1538000915 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 1538000916 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538000917 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1538000918 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538000919 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1538000920 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 1538000921 putative substrate translocation pore; other site 1538000922 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 1538000923 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1538000924 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1538000925 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1538000926 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1538000927 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1538000928 catalytic site; other site 1538000929 subunit interface; other site 1538000930 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1538000931 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1538000932 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 1538000933 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1538000934 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1538000935 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 1538000936 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1538000937 IMP binding site; other site 1538000938 dimer interface; other site 1538000939 interdomain contacts; other site 1538000940 partial ornithine binding site; other site 1538000941 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1538000942 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538000943 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 trans-...; Region: HisKA; cd00082 1538000944 dimer interface; other site 1538000945 phosphorylation site 1538000946 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538000947 ATP binding site; other site 1538000948 Mg2+ binding site; other site 1538000949 G-X-G motif; other site 1538000950 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538000951 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538000952 active site 1538000953 phosphorylation site 1538000954 intermolecular recognition site; other site 1538000955 dimerization interface; other site 1538000956 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...; Region: trans_reg_C; cd00383 1538000957 DNA binding site 1538000958 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1538000959 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1538000960 Ligand binding site; other site 1538000961 Putative Catalytic site; other site 1538000962 DXD motif; other site 1538000963 GtrA-like protein; Region: GtrA; cl00971 1538000964 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 1538000965 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1538000966 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1538000967 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1538000968 tRNA; other site 1538000969 putative tRNA binding site; other site 1538000970 putative NADP binding site; other site 1538000971 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 1538000972 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1538000973 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 1538000974 inhibitor-cofactor binding pocket; inhibition site 1538000975 pyridoxal 5'-phosphate binding site; other site 1538000976 catalytic residue; other site 1538000977 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 1538000978 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1538000979 active site 1538000980 tetramer interface; other site 1538000981 Mannosyltransferase (PIG-V)); Region: Mannosyl_trans2; cl02342 1538000982 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1538000983 putative metal binding site; other site 1538000984 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1538000985 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 1538000986 binding surface 1538000987 TPR motif; other site 1538000988 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 trans-...; Region: HisKA; cd00082 1538000989 dimer interface; other site 1538000990 phosphorylation site 1538000991 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538000992 ATP binding site; other site 1538000993 Mg2+ binding site; other site 1538000994 G-X-G motif; other site 1538000995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200; cl01717 1538000996 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538000997 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 1538000998 Walker A/P-loop; other site 1538000999 ATP binding site; other site 1538001000 Q-loop/lid; other site 1538001001 ABC transporter signature motif; other site 1538001002 Walker B; other site 1538001003 D-loop; other site 1538001004 H-loop/switch region; other site 1538001005 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538001006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538001007 active site 1538001008 phosphorylation site 1538001009 intermolecular recognition site; other site 1538001010 dimerization interface; other site 1538001011 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...; Region: trans_reg_C; cd00383 1538001012 DNA binding site 1538001013 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1538001014 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 1538001015 Walker A/P-loop; other site 1538001016 ATP binding site; other site 1538001017 Q-loop/lid; other site 1538001018 ABC transporter signature motif; other site 1538001019 Walker B; other site 1538001020 D-loop; other site 1538001021 H-loop/switch region; other site 1538001022 NIL domain; Region: NIL; pfam09383 1538001023 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538001024 dimer interface; other site 1538001025 conserved gate region; other site 1538001026 ABC-ATPase subunit interface; other site 1538001027 Uncharacterized conserved protein [Function unknown]; Region: COG3875 1538001028 Uncharacterized conserved protein (DUF2088); Region: DUF2088; pfam09861 1538001029 Predicted transcriptional regulators [Transcription]; Region: COG1725 1538001030 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538001031 DNA binding site 1538001032 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 1538001033 aspartate aminotransferase; Provisional; Region: PRK06836 1538001034 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 1538001035 pyridoxal 5'-phosphate binding site; other site 1538001036 homodimer interface; other site 1538001037 catalytic residue; other site 1538001038 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 1538001039 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 1538001040 putative peptidoglycan binding site; other site 1538001041 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1538001042 Protein of unknown function DUF116; Region: DUF116; cl00800 1538001043 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 1538001044 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538001045 putative substrate translocation pore; other site 1538001046 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 1538001047 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538001048 Protein of unknown function(DUF2089); Region: DUF2089; cl01599 1538001049 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 1538001050 H+ Antiporter protein; Region: 2A0121; TIGR00900 1538001051 putative substrate translocation pore; other site 1538001052 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1538001053 active site 1538001054 ATP binding site; other site 1538001055 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538001056 ethanolamine permease; Region: 2A0305; TIGR00908 1538001057 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538001058 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538001059 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538001060 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538001061 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538001062 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 trans-...; Region: HisKA; cd00082 1538001063 dimer interface; other site 1538001064 phosphorylation site 1538001065 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538001066 ATP binding site; other site 1538001067 Mg2+ binding site; other site 1538001068 G-X-G motif; other site 1538001069 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...; Region: Alpha_ANH_like_II; cd01993 1538001070 Ligand Binding Site; other site 1538001071 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1538001072 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001073 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001074 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001075 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001076 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001077 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001078 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 1538001079 putative peptidoglycan binding site; other site 1538001080 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1538001081 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1538001082 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1538001083 active site 1538001084 metal-binding site 1538001085 homotetramer interface; other site 1538001086 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 1538001087 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1538001088 Peptidase M16C associated; Region: M16C_assoc; pfam08367 1538001089 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1538001090 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538001091 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 1538001092 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 1538001093 Nucleotide-binding sites; other site 1538001094 Walker A motif; other site 1538001095 Switch I region of nucleotide binding site; other site 1538001096 Fe4S4 binding sites; other site 1538001097 Switch II region of nucleotide binding site; other site 1538001098 Nitrogen regulatory protein P-II; Region: P-II; cl00412 1538001099 Nitrogen regulatory protein P-II; Region: P-II; cl00412 1538001100 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1538001101 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1538001102 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1538001103 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1538001104 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 1538001105 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1538001106 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1538001107 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1538001108 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 1538001109 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; cl14056 1538001110 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 1538001111 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 1538001112 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 1538001113 active site 1538001114 catalytic residues; other site 1538001115 metal-binding site 1538001116 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001117 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001118 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001119 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001120 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001121 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001122 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538001123 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538001124 active site 1538001125 phosphorylation site 1538001126 intermolecular recognition site; other site 1538001127 dimerization interface; other site 1538001128 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...; Region: trans_reg_C; cd00383 1538001129 DNA binding site 1538001130 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538001131 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 trans-...; Region: HisKA; cd00082 1538001132 dimer interface; other site 1538001133 phosphorylation site 1538001134 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538001135 ATP binding site; other site 1538001136 Mg2+ binding site; other site 1538001137 G-X-G motif; other site 1538001138 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538001139 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1538001140 Walker A/P-loop; other site 1538001141 ATP binding site; other site 1538001142 Q-loop/lid; other site 1538001143 ABC transporter signature motif; other site 1538001144 Walker B; other site 1538001145 D-loop; other site 1538001146 H-loop/switch region; other site 1538001147 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 1538001148 Outer membrane efflux protein; Region: OEP; pfam02321 1538001149 Outer membrane efflux protein; Region: OEP; pfam02321 1538001150 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1538001151 Outer membrane efflux protein; Region: OEP; pfam02321 1538001152 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001153 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001154 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001155 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001156 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001157 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001158 Chain length determinant protein; Region: Wzz; cl01623 1538001159 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1538001160 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1538001161 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538001162 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 1538001163 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1538001164 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1538001165 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538001166 Bacterial sugar transferase; Region: Bac_transf; cl00939 1538001167 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1538001168 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 1538001169 putative ADP-binding pocket; other site 1538001170 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1538001171 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 1538001172 O-Antigen ligase; Region: Wzy_C; cl04850 1538001173 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1538001174 Probable Catalytic site; other site 1538001175 metal-binding site 1538001176 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 1538001177 active site 1538001178 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: GT1_like_1; cd04950 1538001179 putative homodimer interface; other site 1538001180 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1538001181 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 1538001182 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1538001183 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 1538001184 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1538001185 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1538001186 Probable Catalytic site; other site 1538001187 metal-binding site 1538001188 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1538001189 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1538001190 Substrate binding site; other site 1538001191 Cupin domain; Region: Cupin_2; cl09118 1538001192 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1538001193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538001194 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1538001195 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1538001196 substrate binding site; other site 1538001197 tetramer interface; other site 1538001198 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1538001199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538001200 Cupin domain; Region: Cupin_2; cl09118 1538001201 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1538001202 Integrase core domain; Region: rve; cl01316 1538001203 Integrase core domain; Region: rve; cl01316 1538001204 Bacterial sugar transferase; Region: Bac_transf; cl00939 1538001205 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1538001206 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_6; cd04955 1538001207 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1538001208 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 1538001209 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 1538001210 putative trimer interface; other site 1538001211 putative CoA binding site; other site 1538001212 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cd00352 1538001213 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 1538001214 Ligand Binding Site; other site 1538001215 Molecular Tunnel; other site 1538001216 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1538001217 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1538001218 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1538001219 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 1538001220 inhibitor-cofactor binding pocket; inhibition site 1538001221 pyridoxal 5'-phosphate binding site; other site 1538001222 catalytic residue; other site 1538001223 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 1538001224 ligand binding site; other site 1538001225 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538001226 pseudaminic acid synthase; Region: PseI; TIGR03586 1538001227 NeuB family; Region: NeuB; cl00496 1538001228 SAF domain; Region: SAF; cl00555 1538001229 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1538001230 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 1538001231 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1538001232 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1538001233 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1538001234 Substrate binding site; other site 1538001235 Cupin domain; Region: Cupin_2; cl09118 1538001236 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1538001237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538001238 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1538001239 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1538001240 substrate binding site; other site 1538001241 tetramer interface; other site 1538001242 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1538001243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538001244 Cupin domain; Region: Cupin_2; cl09118 1538001245 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1538001246 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 1538001247 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1538001248 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1538001249 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 1538001250 MgtC family; Region: MgtC; pfam02308 1538001251 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001252 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 1538001253 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001254 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001255 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538001256 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1538001257 Predicted permease; Region: FtsX; cl11418 1538001258 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538001259 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538001260 Walker A/P-loop; other site 1538001261 ATP binding site; other site 1538001262 Q-loop/lid; other site 1538001263 ABC transporter signature motif; other site 1538001264 Walker B; other site 1538001265 D-loop; other site 1538001266 H-loop/switch region; other site 1538001267 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 1538001268 metal ion-dependent adhesion site (MIDAS); other site 1538001269 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 1538001270 metal ion-dependent adhesion site (MIDAS); other site 1538001271 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1538001272 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 1538001273 putative binding site residues; other site 1538001274 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...; Region: TM_ABC_iron-siderophores_like; cd06550 1538001275 ABC-ATPase subunit interface; other site 1538001276 dimer interface; other site 1538001277 putative PBP binding regions; other site 1538001278 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1538001279 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1538001280 Walker A/P-loop; other site 1538001281 ATP binding site; other site 1538001282 Q-loop/lid; other site 1538001283 ABC transporter signature motif; other site 1538001284 Walker B; other site 1538001285 D-loop; other site 1538001286 H-loop/switch region; other site 1538001287 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 1538001288 Domain of unknown function DUF; Region: DUF204; pfam02659 1538001289 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1538001290 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 1538001291 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; cl09152 1538001292 Ion channel; Region: Ion_trans_2; cl11596 1538001293 Domain of unknown function; Region: DUF291; pfam03442 1538001294 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001295 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001296 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538001297 FAD binding domain; Region: FAD_binding_4; cl10516 1538001298 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1538001299 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1538001300 VanZ like family; Region: VanZ; cl01971 1538001301 Macro domain, Af1521- and BAL-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 ADP-...; Region: Macro_Af1521_BAL_like; cd02907 1538001302 ADP-ribose binding site; other site 1538001303 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1538001304 Predicted deacylase [General function prediction only]; Region: COG3608 1538001305 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1538001306 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1538001307 active site 1538001308 metal-binding site 1538001309 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1538001310 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 1538001311 Catalytic site; other site 1538001312 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 1538001313 nucleotide binding site; other site 1538001314 homotetrameric interface; other site 1538001315 putative phosphate binding site; other site 1538001316 putative allosteric binding site; other site 1538001317 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1538001318 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1538001319 putative catalytic cysteine; other site 1538001320 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 1538001321 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 1538001322 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 1538001323 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1538001324 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 1538001325 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538001326 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1538001327 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 1538001328 protein binding site; other site 1538001329 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1538001330 Catalytic dyad; other site 1538001331 Protein of unknown function DUF45; Region: DUF45; cl00636 1538001332 Predicted membrane protein [Function unknown]; Region: COG1971 1538001333 Domain of unknown function DUF; Region: DUF204; pfam02659 1538001334 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1538001335 metal binding site 2; metal-binding site 1538001336 putative DNA binding helix; other site 1538001337 metal binding site 1; metal-binding site 1538001338 dimer interface; other site 1538001339 structural Zn2+ binding site; other site 1538001340 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1538001341 Zn2+ binding site; other site 1538001342 Mg2+ binding site; other site 1538001343 Rhomboid family; Region: Rhomboid; cl11446 1538001344 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1538001345 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...; Region: AAA; cd00009 1538001346 Walker A motif; other site 1538001347 ATP binding site; other site 1538001348 Walker B motif; other site 1538001349 arginine finger; other site 1538001350 Peptidase family M41; Region: Peptidase_M41; pfam01434 1538001351 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 1538001352 RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack...; Region: RnaseH; cd06222 1538001353 RNA/DNA hybrid binding site; other site 1538001354 active site 1538001355 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 1538001356 non-specific DNA binding site; other site 1538001357 salt bridge; other site 1538001358 sequence-specific DNA binding site; other site 1538001359 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 1538001360 non-specific DNA binding site; other site 1538001361 salt bridge; other site 1538001362 sequence-specific DNA binding site; other site 1538001363 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1538001364 Clp amino terminal domain; Region: Clp_N; pfam02861 1538001365 Clp amino terminal domain; Region: Clp_N; pfam02861 1538001366 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...; Region: AAA; cd00009 1538001367 Walker A motif; other site 1538001368 ATP binding site; other site 1538001369 Walker B motif; other site 1538001370 arginine finger; other site 1538001371 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...; Region: AAA; cd00009 1538001372 Walker A motif; other site 1538001373 ATP binding site; other site 1538001374 Walker B motif; other site 1538001375 arginine finger; other site 1538001376 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1538001377 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 1538001378 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1538001379 catalytic triad; other site 1538001380 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1538001381 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1538001382 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1538001383 phosphoenolpyruvate carboxykinase; Provisional; Region: PRK09344 1538001384 active site 1538001385 substrate-binding site; other site 1538001386 metal-binding site 1538001387 ATP binding site; other site 1538001388 Bacitracin resistance protein BacA; Region: BacA; cl00858 1538001389 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538001390 amidohydrolase; Region: amidohydrolases; TIGR01891 1538001391 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1538001392 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 1538001393 Walker A/P-loop; other site 1538001394 ATP binding site; other site 1538001395 Q-loop/lid; other site 1538001396 ABC transporter signature motif; other site 1538001397 Walker B; other site 1538001398 D-loop; other site 1538001399 H-loop/switch region; other site 1538001400 NIL domain; Region: NIL; pfam09383 1538001401 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 1538001402 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...; Region: PBPb; cl11400 1538001403 EamA-like transporter family; Region: EamA; cl01037 1538001404 EamA-like transporter family; Region: EamA; cl01037 1538001405 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 1538001406 substrate binding pocket; other site 1538001407 dimer interface; other site 1538001408 inhibitor binding site; inhibition site 1538001409 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1538001410 homodecamer interface; other site 1538001411 GTP cyclohydrolase I; Provisional; Region: PLN03044 1538001412 active site 1538001413 putative catalytic site residues; other site 1538001414 zinc binding site; other site 1538001415 GTP-CH-I/GFRP interaction surface; other site 1538001416 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1538001417 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines...; Region: DHNA_DHNTPE; cd00534 1538001418 homooctamer interface; other site 1538001419 active site 1538001420 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 1538001421 catalytic center binding site; other site 1538001422 ATP binding site; other site 1538001423 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1538001424 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 1538001425 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1538001426 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1538001427 Coenzyme A binding pocket; other site 1538001428 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 1538001429 metal ion-dependent adhesion site (MIDAS); other site 1538001430 ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]; Region: ClpX; COG1219 1538001431 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1538001432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200; cl01717 1538001433 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1538001434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200; cl01717 1538001435 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538001436 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 1538001437 Walker A/P-loop; other site 1538001438 ATP binding site; other site 1538001439 Q-loop/lid; other site 1538001440 ABC transporter signature motif; other site 1538001441 Walker B; other site 1538001442 D-loop; other site 1538001443 H-loop/switch region; other site 1538001444 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 trans-...; Region: HisKA; cd00082 1538001445 dimer interface; other site 1538001446 phosphorylation site 1538001447 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538001448 ATP binding site; other site 1538001449 G-X-G motif; other site 1538001450 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538001451 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538001452 active site 1538001453 phosphorylation site 1538001454 intermolecular recognition site; other site 1538001455 dimerization interface; other site 1538001456 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...; Region: trans_reg_C; cd00383 1538001457 DNA binding site 1538001458 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1538001459 EamA-like transporter family; Region: EamA; cl01037 1538001460 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538001461 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1538001462 putative acyl-acceptor binding pocket; other site 1538001463 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1538001464 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 1538001465 active site 1538001466 catalytic residues; other site 1538001467 metal-binding site 1538001468 aconitate hydratase; Validated; Region: PRK07229 1538001469 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 1538001470 substrate binding site; other site 1538001471 ligand binding site; other site 1538001472 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...; Region: AcnA_Bact_Swivel; cd01579 1538001473 substrate binding site; other site 1538001474 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1538001475 isocitrate dehydrogenase; Validated; Region: PRK06451 1538001476 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 1538001477 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 1538001478 homodimer interface; other site 1538001479 substrate-cofactor binding pocket; other site 1538001480 pyridoxal 5'-phosphate binding site; other site 1538001481 catalytic residue; other site 1538001482 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1538001483 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 1538001484 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1538001485 substrate binding pocket; other site 1538001486 dimer interface; other site 1538001487 inhibitor binding site; inhibition site 1538001488 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1538001489 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 1538001490 B12 binding site; other site 1538001491 cobalt ligand; other site 1538001492 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; cl09108 1538001493 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; cl09108 1538001494 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1538001495 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...; Region: PBPb; cd00134 1538001496 substrate binding pocket; other site 1538001497 membrane-bound complex binding site; other site 1538001498 hinge residues; other site 1538001499 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1538001500 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538001501 dimer interface; other site 1538001502 conserved gate region; other site 1538001503 putative PBP binding loops; other site 1538001504 ABC-ATPase subunit interface; other site 1538001505 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1538001506 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 1538001507 Walker A/P-loop; other site 1538001508 ATP binding site; other site 1538001509 Q-loop/lid; other site 1538001510 ABC transporter signature motif; other site 1538001511 Walker B; other site 1538001512 D-loop; other site 1538001513 H-loop/switch region; other site 1538001514 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 1538001515 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 1538001516 ANP binding site; other site 1538001517 Substrate Binding Site II; other site 1538001518 Substrate Binding Site I; other site 1538001519 argininosuccinate lyase; Provisional; Region: PRK00855 1538001520 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1538001521 active sites 1538001522 tetramer interface; other site 1538001523 Domain of unknown function (DUF378); Region: DUF378; cl00943 1538001524 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538001525 asparagine synthetase A; Reviewed; Region: PRK06462 1538001526 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 1538001527 motif 1; other site 1538001528 dimer interface; other site 1538001529 active site 1538001530 motif 2; other site 1538001531 motif 3; other site 1538001532 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1538001533 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538001534 DNA binding site 1538001535 UTRA domain; Region: UTRA; cl06649 1538001536 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1538001537 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1538001538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538001539 Peptidase family M48; Region: Peptidase_M48; cl12018 1538001540 RNA polymerase factor sigma-70; Validated; Region: PRK06811 1538001541 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538001542 FCD domain; Region: FCD; cl11656 1538001543 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 1538001544 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 1538001545 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1538001546 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1538001547 active site 1538001548 dimer interface; other site 1538001549 effector binding site; other site 1538001550 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1538001551 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1538001552 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 1538001553 trimer interface; other site 1538001554 putative metal binding site; other site 1538001555 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1538001556 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 1538001557 putative peptidoglycan binding site; other site 1538001558 Peptidase M14-like domain of Gamma-D-glutamyl-L-diamino acid endopeptidase 1 (also known as Gamma-D-glutamyl-meso-diaminopimelate peptidase I, and Endopeptidase I (ENP1); EC 3.4.19.11). ENP1 is a member of the M14 family of metallocarboxypeptidases (...; Region: M14_Endopeptidase_I; cd06229 1538001559 putative active site; other site 1538001560 Zn-binding site; other site 1538001561 Protein of unknown function (DUF327); Region: DUF327; cl00753 1538001562 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1538001563 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1538001564 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1538001565 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; cl11391 1538001566 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1538001567 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1538001568 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 1538001569 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1538001570 NAD synthetase; Reviewed; Region: nadE; PRK02628 1538001571 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1538001572 multimer interface; other site 1538001573 active site 1538001574 catalytic triad; other site 1538001575 protein interface 1; other site 1538001576 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...; Region: NAD_synthase; cd00553 1538001577 homodimer interface; other site 1538001578 NAD binding pocket; other site 1538001579 ATP binding pocket; other site 1538001580 Mg binding site; other site 1538001581 active-site loop 1538001582 NfeD-like; Region: NfeD; cl00686 1538001583 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 1538001584 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1538001585 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538001586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538001587 active site 1538001588 phosphorylation site 1538001589 intermolecular recognition site; other site 1538001590 dimerization interface; other site 1538001591 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...; Region: trans_reg_C; cd00383 1538001592 DNA binding site 1538001593 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1538001594 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 connected by an extended linker. The...; Region: HAMP; cd06225 1538001595 dimerization interface; other site 1538001596 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 trans-...; Region: HisKA; cd00082 1538001597 dimer interface; other site 1538001598 phosphorylation site 1538001599 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538001600 ATP binding site; other site 1538001601 Mg2+ binding site; other site 1538001602 G-X-G motif; other site 1538001603 ATP-dependent nuclease subunit B; Region: addB_Gpos; TIGR02773 1538001604 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1538001605 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H)...; Region: MopB_Formate-Dh-H; cd02753 1538001606 [4Fe-4S] binding site; other site 1538001607 molybdopterin cofactor binding site; other site 1538001608 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H)...; Region: MopB_CT_Formate-Dh_H; cd02790 1538001609 molybdopterin cofactor binding site; other site 1538001610 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1538001611 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1538001612 dimer interface; other site 1538001613 putative functional site; other site 1538001614 putative MPT binding site; other site 1538001615 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa...; Region: MobB; cd03116 1538001616 Walker A motif; other site 1538001617 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 1538001618 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...; Region: TRX_Fd_NuoE; cd03064 1538001619 putative dimer interface; other site 1538001620 [2Fe-2S] cluster binding site; other site 1538001621 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 1538001622 dimer interface; other site 1538001623 [2Fe-2S] cluster binding site; other site 1538001624 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1538001625 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1538001626 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 1538001627 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 1538001628 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1538001629 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 1538001630 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 1538001631 catalytic loop; other site 1538001632 iron binding site; other site 1538001633 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 alpha-; Region: HCP_like; cl00255 1538001634 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 1538001635 hydrogenases, Fe-only; Region: Fe_only_hydrog; TIGR02512 1538001636 4Fe-4S binding domain; Region: Fer4; pfam00037 1538001637 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1538001638 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 1538001639 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1538001640 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...; Region: AAA; cd00009 1538001641 Walker A motif; other site 1538001642 ATP binding site; other site 1538001643 Walker B motif; other site 1538001644 arginine finger; other site 1538001645 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538001646 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1538001647 Hexamer/Pentamer interface; other site 1538001648 central pore; other site 1538001649 Predicted histidine kinase sensor domain; Region: Hist_Kin_Sens; pfam10114 1538001650 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1538001651 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538001652 ethanolamine permease; Region: 2A0305; TIGR00908 1538001653 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538001654 hypothetical protein; Provisional; Region: PRK04435 1538001655 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1538001656 homoserine dehydrogenase; Provisional; Region: PRK06349 1538001657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538001658 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1538001659 homoserine kinase; Provisional; Region: PRK01212 1538001660 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 1538001661 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538001662 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 1538001663 active site 1538001664 dimer interface; other site 1538001665 DNA repair protein RadC; Reviewed; Region: radC; PRK00024 1538001666 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 1538001667 helix-hairpin-helix signature motif; other site 1538001668 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1538001669 MPN+ (JAMM) motif; other site 1538001670 Zinc-binding site; other site 1538001671 rod shape-determining protein MreB; Provisional; Region: PRK13927 1538001672 Cell division protein FtsA; Region: FtsA; cl11496 1538001673 rod shape-determining protein MreC; Region: MreC; pfam04085 1538001674 rod shape-determining protein MreD; Region: MreD; cl01087 1538001675 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1538001676 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 1538001677 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 1538001678 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1538001679 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 1538001680 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 1538001681 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 1538001682 septum formation inhibitor; Reviewed; Region: minC; PRK00513 1538001683 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1538001684 septum site-determining protein MinD; Region: minD_bact; TIGR01968 1538001685 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a...; Region: MinD; cd02036 1538001686 Switch I; other site 1538001687 Switch II; other site 1538001688 Septum formation topological specificity factor MinE; Region: MinE; cl00538 1538001689 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1538001690 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1538001691 active site 1538001692 dimer interfaces; other site 1538001693 catalytic residues; other site 1538001694 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 1538001695 active site 1538001696 putative substrate binding region; other site 1538001697 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1538001698 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 1538001699 FeS/SAM binding site; other site 1538001700 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 1538001701 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1538001702 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1538001703 homodimer interface; other site 1538001704 oligonucleotide binding site; other site 1538001705 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 1538001706 Protein of unknown function (DUF464); Region: DUF464; cl01080 1538001707 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 1538001708 GTPase ObgE; Reviewed; Region: obgE; PRK12297 1538001709 GTP1/OBG; Region: GTP1_OBG; pfam01018 1538001710 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 1538001711 G1 box; other site 1538001712 GTP/Mg2+ binding site; other site 1538001713 Switch I region; other site 1538001714 G2 box; other site 1538001715 G3 box; other site 1538001716 Switch II region; other site 1538001717 G4 box; other site 1538001718 G5 box; other site 1538001719 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 1538001720 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1538001721 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1538001722 active site 1538001723 substrate binding site; other site 1538001724 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 1538001725 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1538001726 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 1538001727 homotrimer interaction site; other site 1538001728 putative active site; other site 1538001729 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1538001730 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 1538001731 active site 1538001732 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1538001733 Beta-lactamase; Region: Beta-lactamase; cl01009 1538001734 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1538001735 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 1538001736 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 1538001737 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1538001738 dimerization interface; other site 1538001739 putative ATP binding site; other site 1538001740 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 1538001741 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1538001742 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 1538001743 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 1538001744 SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of...; Region: SelB; cd04171 1538001745 G1 box; other site 1538001746 putative GEF interaction site; other site 1538001747 GTP/Mg2+ binding site; other site 1538001748 Switch I region; other site 1538001749 G2 box; other site 1538001750 G3 box; other site 1538001751 Switch II region; other site 1538001752 G4 box; other site 1538001753 G5 box; other site 1538001754 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires...; Region: selB_II; cd03696 1538001755 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1538001756 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1538001757 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1538001758 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1538001759 substrate binding pocket; other site 1538001760 dimer interface; other site 1538001761 inhibitor binding site; inhibition site 1538001762 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1538001763 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1538001764 B12 binding site; other site 1538001765 cobalt ligand; other site 1538001766 CmuC_like. Proteins similar to the putative corrinoid methyltransferase CmuC. Its function has been inferred from sequence similarity to the methyltransferases CmuA and MtaA. Mutants of Methylobacterium sp. disrupted in cmuC and purU appear deficient...; Region: CmuC_like; cd03309 1538001767 NADH:ubiquinone oxidoreductase, Na(+)-translocating, F subunit; Region: nqrF; TIGR01941 1538001768 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1538001769 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1538001770 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1538001771 substrate binding pocket; other site 1538001772 dimer interface; other site 1538001773 inhibitor binding site; inhibition site 1538001774 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1538001775 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1538001776 B12 binding site; other site 1538001777 cobalt ligand; other site 1538001778 CmuC_like. Proteins similar to the putative corrinoid methyltransferase CmuC. Its function has been inferred from sequence similarity to the methyltransferases CmuA and MtaA. Mutants of Methylobacterium sp. disrupted in cmuC and purU appear deficient...; Region: CmuC_like; cd03309 1538001779 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538001780 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1538001781 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1538001782 Protein export membrane protein; Region: SecD_SecF; cl14618 1538001783 OsmC-like protein; Region: OsmC; cl00767 1538001784 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1538001785 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1538001786 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1538001787 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 1538001788 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538001789 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538001790 Walker A/P-loop; other site 1538001791 ATP binding site; other site 1538001792 Q-loop/lid; other site 1538001793 ABC transporter signature motif; other site 1538001794 Walker B; other site 1538001795 D-loop; other site 1538001796 H-loop/switch region; other site 1538001797 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1538001798 Predicted permease; Region: FtsX; cl11418 1538001799 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1538001800 Predicted permease; Region: FtsX; cl11418 1538001801 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538001802 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538001803 active site 1538001804 phosphorylation site 1538001805 intermolecular recognition site; other site 1538001806 dimerization interface; other site 1538001807 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...; Region: trans_reg_C; cd00383 1538001808 DNA binding site 1538001809 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 1538001810 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 trans-...; Region: HisKA; cd00082 1538001811 dimer interface; other site 1538001812 phosphorylation site 1538001813 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538001814 ATP binding site; other site 1538001815 Mg2+ binding site; other site 1538001816 G-X-G motif; other site 1538001817 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1538001818 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 1538001819 ligand binding site; other site 1538001820 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538001821 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 alpha-; Region: HCP_like; cl00255 1538001822 CODH interaction site; other site 1538001823 hydroxylamine reductase; Provisional; Region: PRK12310 1538001824 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 1538001825 hybrid metal cluster; other site 1538001826 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538001827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538001828 active site 1538001829 phosphorylation site 1538001830 intermolecular recognition site; other site 1538001831 dimerization interface; other site 1538001832 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...; Region: trans_reg_C; cd00383 1538001833 DNA binding site 1538001834 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538001835 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 1538001836 Walker A/P-loop; other site 1538001837 ATP binding site; other site 1538001838 Q-loop/lid; other site 1538001839 ABC transporter signature motif; other site 1538001840 Walker B; other site 1538001841 D-loop; other site 1538001842 H-loop/switch region; other site 1538001843 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1538001844 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538001845 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538001846 Walker A/P-loop; other site 1538001847 ATP binding site; other site 1538001848 Q-loop/lid; other site 1538001849 ABC transporter signature motif; other site 1538001850 Walker B; other site 1538001851 D-loop; other site 1538001852 H-loop/switch region; other site 1538001853 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1538001854 Predicted permease; Region: FtsX; cl11418 1538001855 Predicted permease; Region: FtsX; cl11418 1538001856 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 trans-...; Region: HisKA; cd00082 1538001857 dimer interface; other site 1538001858 phosphorylation site 1538001859 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538001860 ATP binding site; other site 1538001861 Mg2+ binding site; other site 1538001862 G-X-G motif; other site 1538001863 Integral membrane protein TerC family; Region: TerC; cl10468 1538001864 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538001865 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538001866 active site 1538001867 phosphorylation site 1538001868 intermolecular recognition site; other site 1538001869 dimerization interface; other site 1538001870 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...; Region: trans_reg_C; cd00383 1538001871 DNA binding site 1538001872 hypothetical protein; Provisional; Region: PRK06771 1538001873 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1538001874 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 connected by an extended linker. The...; Region: HAMP; cd06225 1538001875 dimerization interface; other site 1538001876 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 trans-...; Region: HisKA; cd00082 1538001877 dimer interface; other site 1538001878 phosphorylation site 1538001879 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538001880 ATP binding site; other site 1538001881 Mg2+ binding site; other site 1538001882 G-X-G motif; other site 1538001883 Sulfite exporter TauE/SafE; Region: TauE; cl00498 1538001884 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1538001885 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1538001886 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1538001887 Competence protein; Region: Competence; cl00471 1538001888 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1538001889 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1538001890 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 1538001891 Germination protease; Region: Peptidase_A25; cl04057 1538001892 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 1538001893 stage II sporulation protein P; Region: spore_II_P; TIGR02867 1538001894 GTP-binding protein LepA; Provisional; Region: PRK05433 1538001895 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 1538001896 G1 box; other site 1538001897 putative GEF interaction site; other site 1538001898 GTP/Mg2+ binding site; other site 1538001899 Switch I region; other site 1538001900 G2 box; other site 1538001901 G3 box; other site 1538001902 Switch II region; other site 1538001903 G4 box; other site 1538001904 G5 box; other site 1538001905 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-...; Region: lepA_II; cd03699 1538001906 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 1538001907 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1538001908 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 1538001909 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 1538001910 FeS/SAM binding site; other site 1538001911 HemN C-terminal region; Region: HemN_C; pfam06969 1538001912 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1538001913 HrcA protein C terminal domain; Region: HrcA; pfam01628 1538001914 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 1538001915 dimer interface; other site 1538001916 hsp70 (ATPase domain) interactions; other site 1538001917 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1538001918 chaperone protein DnaJ; Provisional; Region: PRK14297 1538001919 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...; Region: DnaJ; cd06257 1538001920 HSP70 interaction site; other site 1538001921 DnaJ C terminal region; Region: DnaJ_C; pfam01556 1538001922 DnaJ C terminal region; Region: DnaJ_C; pfam01556 1538001923 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1538001924 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 1538001925 S-adenosylmethionine binding site; other site 1538001926 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 1538001927 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1538001928 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1538001929 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 1538001930 FeS/SAM binding site; other site 1538001931 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1538001932 nucleotide binding site/active site; other site 1538001933 HIT family signature motif; other site 1538001934 catalytic residue; other site 1538001935 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 1538001936 GatB domain; Region: GatB_Yqey; cl11497 1538001937 YabP family; Region: YabP; cl06766 1538001938 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1538001939 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 1538001940 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1538001941 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1538001942 Zn2+ binding site; other site 1538001943 Mg2+ binding site; other site 1538001944 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 1538001945 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 1538001946 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 1538001947 active site 1538001948 GTP-binding protein Era; Reviewed; Region: era; PRK00089 1538001949 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 1538001950 G1 box; other site 1538001951 GTP/Mg2+ binding site; other site 1538001952 Switch I region; other site 1538001953 G2 box; other site 1538001954 Switch II region; other site 1538001955 G3 box; other site 1538001956 G4 box; other site 1538001957 G5 box; other site 1538001958 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 1538001959 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1538001960 Recombination protein O N terminal; Region: RecO_N; pfam11967 1538001961 Recombination protein O C terminal; Region: RecO_C; pfam02565 1538001962 nascent polypeptide-associated complex protein; Reviewed; Region: nac; PRK06369 1538001963 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538001964 FOG: CBS domain [General function prediction only]; Region: COG0517 1538001965 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-...; Region: CBS_pair_4; cd04617 1538001966 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1538001967 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1538001968 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1538001969 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 1538001970 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538001971 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538001972 drug efflux system protein MdtG; Provisional; Region: PRK09874 1538001973 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 1538001974 putative substrate translocation pore; other site 1538001975 Isochorismatase family; Region: Isochorismatase; pfam00857 1538001976 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1538001977 catalytic triad; other site 1538001978 conserved cis-peptide bond; other site 1538001979 putative selenate reductase, YgfK subunit; Region: Se_ygfK; TIGR03315 1538001980 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1538001981 DNA primase; Validated; Region: dnaG; PRK05667 1538001982 CHC2 zinc finger; Region: zf-CHC2; cl02597 1538001983 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1538001984 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 1538001985 active site 1538001986 metal-binding site 1538001987 interdomain interaction site; other site 1538001988 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1538001989 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1538001990 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1538001991 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1538001992 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538001993 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1538001994 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...; Region: Sigma70_r4; cd06171 1538001995 DNA binding residues 1538001996 Protein of unknown function (DUF2679); Region: DUF2679; pfam10882 1538001997 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; cl12011 1538001998 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1538001999 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 1538002000 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1538002001 Putative zinc ribbon domain; Region: DUF164; pfam02591 1538002002 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1538002003 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)...; Region: Trp-synth-beta_II; cl00342 1538002004 pyridoxal 5'-phosphate binding pocket; other site 1538002005 Sulfite exporter TauE/SafE; Region: TauE; cl00498 1538002006 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 1538002007 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1538002008 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538002009 Amino acid permease; Region: AA_permease; pfam00324 1538002010 potential frameshift: common BLAST hit: gi|73668734|ref|YP_304749.1| beta-lactamase class C and other pencillin-binding proteins 1538002011 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 1538002012 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 1538002013 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1538002014 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 1538002015 Walker A/P-loop; other site 1538002016 ATP binding site; other site 1538002017 Q-loop/lid; other site 1538002018 ABC transporter signature motif; other site 1538002019 Walker B; other site 1538002020 D-loop; other site 1538002021 H-loop/switch region; other site 1538002022 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 1538002023 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases...; Region: sialate_O-acetylesterase_like2; cd01828 1538002024 active site 1538002025 catalytic triad; other site 1538002026 oxyanion hole; other site 1538002027 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1538002028 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1538002029 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 1538002030 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 C-...; Region: PDZ_serine_protease; cd00987 1538002031 protein binding site; other site 1538002032 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1538002033 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538002034 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 1538002035 MatE; Region: MatE; pfam01554 1538002036 MatE; Region: MatE; pfam01554 1538002037 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 1538002038 Permease family; Region: Xan_ur_permease; cl00967 1538002039 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1538002040 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 1538002041 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538002042 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_4; cd04501 1538002043 active site 1538002044 catalytic triad; other site 1538002045 oxyanion hole; other site 1538002046 AIR carboxylase; Region: AIRC; cl00310 1538002047 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1538002048 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1538002049 ATP binding site; other site 1538002050 active site 1538002051 substrate binding site; other site 1538002052 amidophosphoribosyltransferase; Provisional; Region: PRK05793 1538002053 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 1538002054 active site 1538002055 tetramer interface; other site 1538002056 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 1538002057 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1538002058 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...; Region: PurM; cd02196 1538002059 dimerization interface; other site 1538002060 putative ATP binding site; other site 1538002061 Formyl transferase; Region: Formyl_trans_N; cl00395 1538002062 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 1538002063 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1538002064 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 1538002065 purine monophosphate binding site; other site 1538002066 dimer interface; other site 1538002067 putative catalytic residues; other site 1538002068 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1538002069 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1538002070 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1538002071 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1538002072 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 1538002073 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1538002074 Predicted periplasmic protein (DUF2233); Region: DUF2233; cl10481 1538002075 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538002076 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1538002077 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538002078 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538002079 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538002080 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 1538002081 hypothetical protein; Validated; Region: PRK07121 1538002082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538002083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538002084 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1538002085 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1538002086 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1538002087 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 1538002088 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1538002089 catalytic loop; other site 1538002090 iron binding site; other site 1538002091 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1538002092 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 1538002093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538002094 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1538002095 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1538002096 DNA binding residues 1538002097 drug binding residues; other site 1538002098 dimer interface; other site 1538002099 Putative cyclase; Region: Cyclase; cl00814 1538002100 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 1538002101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538002102 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1538002103 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538002104 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538002105 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1538002106 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and alpha-...; Region: BCAT_beta_family; cd01557 1538002107 homodimer interface; other site 1538002108 substrate-cofactor binding pocket; other site 1538002109 catalytic residue; other site 1538002110 TRAM domain; Region: TRAM; cl01282 1538002111 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1538002112 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 1538002113 S-adenosylmethionine binding site; other site 1538002114 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1538002115 Sulfatase; Region: Sulfatase; cl10460 1538002116 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1538002117 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 1538002118 active site 1538002119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 1538002120 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1538002121 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...; Region: PBPb; cl11400 1538002122 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1538002123 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 1538002124 Walker A/P-loop; other site 1538002125 ATP binding site; other site 1538002126 Q-loop/lid; other site 1538002127 ABC transporter signature motif; other site 1538002128 Walker B; other site 1538002129 D-loop; other site 1538002130 H-loop/switch region; other site 1538002131 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538002132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538002133 active site 1538002134 phosphorylation site 1538002135 intermolecular recognition site; other site 1538002136 dimerization interface; other site 1538002137 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...; Region: trans_reg_C; cd00383 1538002138 DNA binding site 1538002139 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 1538002140 Beta-lactamase; Region: Beta-lactamase; cl01009 1538002141 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1538002142 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 1538002143 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538002144 DNA binding site 1538002145 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 1538002146 pyridoxal 5'-phosphate binding site; other site 1538002147 homodimer interface; other site 1538002148 catalytic residue; other site 1538002149 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538002150 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 1538002151 putative substrate translocation pore; other site 1538002152 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1538002153 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; cl09110 1538002154 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1538002155 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 1538002156 active site 1538002157 signature motif; other site 1538002158 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 1538002159 active site 1538002160 signature motif; other site 1538002161 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1538002162 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1538002163 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1538002164 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538002165 Walker A/P-loop; other site 1538002166 ATP binding site; other site 1538002167 Q-loop/lid; other site 1538002168 ABC transporter signature motif; other site 1538002169 Walker B; other site 1538002170 D-loop; other site 1538002171 H-loop/switch region; other site 1538002172 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1538002173 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1538002174 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 1538002175 Walker A/P-loop; other site 1538002176 ATP binding site; other site 1538002177 Q-loop/lid; other site 1538002178 ABC transporter signature motif; other site 1538002179 Walker B; other site 1538002180 D-loop; other site 1538002181 H-loop/switch region; other site 1538002182 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1538002183 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H)...; Region: MopB_Formate-Dh-H; cd02753 1538002184 [4Fe-4S] binding site; other site 1538002185 molybdopterin cofactor binding site; other site 1538002186 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H)...; Region: MopB_CT_Formate-Dh_H; cd02790 1538002187 molybdopterin cofactor binding site; other site 1538002188 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1538002189 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 1538002190 ligand binding site; other site 1538002191 calcium binding site; other site 1538002192 CHASE3 domain; Region: CHASE3; cl05000 1538002193 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538002194 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538002195 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538002196 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1538002197 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1538002198 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1538002199 Coenzyme A binding pocket; other site 1538002200 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]; Region: CYK3; COG5279 1538002201 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 1538002202 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 1538002203 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 1538002204 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1538002205 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 1538002206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1538002207 Cache domain; Region: Cache_1; pfam02743 1538002208 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538002209 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 1538002210 2-isopropylmalate synthase; Validated; Region: PRK00915 1538002211 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1538002212 active site 1538002213 catalytic residues; other site 1538002214 metal-binding site 1538002215 LeuA allosteric (dimerization) domain; Region: LeuA_dimer; pfam08502 1538002216 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1538002217 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1538002218 substrate binding site; other site 1538002219 ligand binding site; other site 1538002220 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 3-...; Region: IPMI_Swivel; cd01577 1538002221 substrate binding site; other site 1538002222 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1538002223 isocitrate dehydrogenase; Validated; Region: PRK06451 1538002224 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1538002225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538002226 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 1538002227 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 1538002228 ACS interaction site; other site 1538002229 CODH interaction site; other site 1538002230 cubane metal cluster (B-cluster); other site 1538002231 Ni-Fe-S cluster (C-cluster); other site 1538002232 helicase 45; Provisional; Region: PTZ00424 1538002233 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 1538002234 ATP binding site; other site 1538002235 Mg++ binding site; other site 1538002236 motif III; other site 1538002237 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 1538002238 nucleotide binding region; other site 1538002239 ATP-binding site; other site 1538002240 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1538002241 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 1538002242 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1538002243 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 1538002244 Walker A/P-loop; other site 1538002245 ATP binding site; other site 1538002246 Q-loop/lid; other site 1538002247 ABC transporter signature motif; other site 1538002248 Walker B; other site 1538002249 D-loop; other site 1538002250 H-loop/switch region; other site 1538002251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200; cl01717 1538002252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200; cl01717 1538002253 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538002254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538002255 active site 1538002256 phosphorylation site 1538002257 intermolecular recognition site; other site 1538002258 dimerization interface; other site 1538002259 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...; Region: trans_reg_C; cd00383 1538002260 DNA binding site 1538002261 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1538002262 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538002263 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 trans-...; Region: HisKA; cd00082 1538002264 dimer interface; other site 1538002265 phosphorylation site 1538002266 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538002267 ATP binding site; other site 1538002268 Mg2+ binding site; other site 1538002269 G-X-G motif; other site 1538002270 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1538002271 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538002272 ATP binding site; other site 1538002273 Mg2+ binding site; other site 1538002274 G-X-G motif; other site 1538002275 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 1538002276 anchoring element; other site 1538002277 dimer interface; other site 1538002278 ATP binding site; other site 1538002279 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1538002280 active site 1538002281 metal-binding site 1538002282 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1538002283 DNA topoisomerase IV subunit A; Provisional; Region: PRK13979 1538002284 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 in...; Region: TOP4c; cd00187 1538002285 CAP-like domain; other site 1538002286 active site 1538002287 primary dimer interface; other site 1538002288 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1538002289 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1538002290 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1538002291 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1538002292 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1538002293 conserved cys residue; other site 1538002294 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1538002295 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1538002296 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1538002297 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1538002298 DHH family; Region: DHH; pfam01368 1538002299 DHHA1 domain; Region: DHHA1; pfam02272 1538002300 arginine repressor; Provisional; Region: argR; PRK00441 1538002301 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1538002302 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1538002303 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538002304 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538002305 Amidinotransferase; Region: Amidinotransf; cl12043 1538002306 Arginine deiminase [Amino acid transport and metabolism]; Region: ArcA; COG2235 1538002307 ornithine carbamoyltransferase; Provisional; Region: PRK04284 1538002308 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1538002309 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1538002310 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538002311 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538002312 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1538002313 carbamate kinase; Reviewed; Region: PRK12686 1538002314 putative substrate binding site; other site 1538002315 nucleotide binding site; other site 1538002316 nucleotide binding site; other site 1538002317 homodimer interface; other site 1538002318 Cache domain; Region: Cache_1; pfam02743 1538002319 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538002320 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538002321 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538002322 Predicted transcriptional regulators [Transcription]; Region: COG1378 1538002323 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538002324 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 1538002325 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...; Region: GT1_MurG; cd03785 1538002326 active site 1538002327 homodimer interface; other site 1538002328 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1538002329 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 1538002330 dimer interface; other site 1538002331 PYR/PP interface; other site 1538002332 TPP binding site; other site 1538002333 substrate binding site; other site 1538002334 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 1538002335 Domain of unknown function; Region: EKR; pfam10371 1538002336 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 alpha-; Region: HCP_like; cl00255 1538002337 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 subfamily also includes proteins characterized as...; Region: TPP_PFOR_PNO; cd03377 1538002338 TPP-binding site; other site 1538002339 dimer interface; other site 1538002340 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1538002341 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; cl11391 1538002342 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cd00449 1538002343 homodimer interface; other site 1538002344 substrate-cofactor binding pocket; other site 1538002345 Aminotransferase class IV; Region: Aminotran_4; pfam01063 1538002346 pyridoxal 5'-phosphate binding site; other site 1538002347 catalytic residue; other site 1538002348 Uncharacterized conserved protein [Function unknown]; Region: COG1315 1538002349 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 1538002350 putative CheA interaction surface; other site 1538002351 CheD; Region: CheD; cl00810 1538002352 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1538002353 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538002354 active site 1538002355 phosphorylation site 1538002356 intermolecular recognition site; other site 1538002357 dimerization interface; other site 1538002358 CheB methylesterase; Region: CheB_methylest; pfam01339 1538002359 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1538002360 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1538002361 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; cl12011 1538002362 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1538002363 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 1538002364 putative binding surface; other site 1538002365 active site 1538002366 P2 response regulator binding domain; Region: P2; pfam07194 1538002367 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1538002368 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538002369 ATP binding site; other site 1538002370 Mg2+ binding site; other site 1538002371 G-X-G motif; other site 1538002372 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 1538002373 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1538002374 CheC-like family; Region: CheC; pfam04509 1538002375 CheC-like family; Region: CheC; pfam04509 1538002376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538002377 active site 1538002378 phosphorylation site 1538002379 intermolecular recognition site; other site 1538002380 dimerization interface; other site 1538002381 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 1538002382 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1538002383 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1538002384 flagellar motor switch protein; Validated; Region: PRK08119 1538002385 CheC-like family; Region: CheC; pfam04509 1538002386 CheC-like family; Region: CheC; pfam04509 1538002387 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1538002388 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 1538002389 FlgN protein; Region: FlgN; cl09176 1538002390 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 1538002391 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1538002392 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 1538002393 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1538002394 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 1538002395 FliW protein; Region: FliW; cl00740 1538002396 Global regulator protein family; Region: CsrA; cl00670 1538002397 FlaG protein; Region: FlaG; cl00591 1538002398 Flagellar protein FliS; Region: FliS; cl00654 1538002399 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1538002400 flagellar capping protein; Provisional; Region: PRK12765 1538002401 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1538002402 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1538002403 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1538002404 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1538002405 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1538002406 flagellin; Provisional; Region: PRK12804 1538002407 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1538002408 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 1538002409 active site 1538002410 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; cl12011 1538002411 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 1538002412 subunit; Region: OAD_beta; cl00816 1538002413 Global regulator protein family; Region: CsrA; cl00670 1538002414 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 1538002415 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1538002416 flagellin; Validated; Region: PRK08026 1538002417 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1538002418 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 1538002419 active site 1538002420 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1538002421 putative metal binding site; other site 1538002422 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1538002423 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 1538002424 binding surface 1538002425 TPR motif; other site 1538002426 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 1538002427 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 1538002428 Integrase core domain; Region: rve; cl01316 1538002429 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1538002430 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 1538002431 Int/Topo IB signature motif; other site 1538002432 potential frameshift: common BLAST hit: gi|167630973|ref|YP_001681472.1| phage integrase 1538002433 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 1538002434 Int/Topo IB signature motif; other site 1538002435 active site 1538002436 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 1538002437 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 1538002438 DNA binding site 1538002439 Int/Topo IB signature motif; other site 1538002440 active site 1538002441 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 1538002442 Integrase core domain; Region: rve; cl01316 1538002443 Integrase core domain; Region: rve; cl01316 1538002444 potential frameshift: common BLAST hit: gi|134298178|ref|YP_001111674.1| transposase 1538002445 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538002446 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 1538002447 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1538002448 active site 1538002449 NTP binding site; other site 1538002450 metal binding triad; metal-binding site 1538002451 antibiotic binding site; other site 1538002452 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 1538002453 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1538002454 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1538002455 putative metal binding site; other site 1538002456 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 1538002457 binding surface 1538002458 TPR motif; other site 1538002459 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 1538002460 Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins; Region: NT_Pol-beta-like; cl11966 1538002461 metal binding triad; metal-binding site 1538002462 Protein of unknown function DUF86; Region: DUF86; cl01031 1538002463 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 1538002464 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 1538002465 Domain of unknown function (DUF1297); Region: DUF1297; pfam06973 1538002466 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1538002467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538002468 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 1538002469 Predicted membrane protein [Function unknown]; Region: COG4640 1538002470 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538002471 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538002472 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538002473 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1538002474 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1538002475 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1538002476 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1538002477 homoserine dehydrogenase; Provisional; Region: PRK06349 1538002478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538002479 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1538002480 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1538002481 Protein of unknown function (DUF441); Region: DUF441; cl01041 1538002482 YopX protein; Region: YopX; cl09859 1538002483 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; cl00391 1538002484 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1538002485 trimer interface; other site 1538002486 active site 1538002487 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 1538002488 dimer interface; other site 1538002489 ssDNA binding site; other site 1538002490 tetramer (dimer of dimers) interface; other site 1538002491 Cache domain; Region: Cache_1; pfam02743 1538002492 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538002493 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538002494 flagellin; Provisional; Region: PRK12802 1538002495 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1538002496 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1538002497 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 1538002498 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12630 1538002499 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 1538002500 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1538002501 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 1538002502 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1538002503 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1538002504 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1538002505 FliG C-terminal domain; Region: FliG_C; pfam01706 1538002506 flagellar assembly protein H; Validated; Region: fliH; PRK06669 1538002507 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 1538002508 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1538002509 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 1538002510 Walker A motif/ATP binding site; other site 1538002511 Walker B motif; other site 1538002512 Flagellar FliJ protein; Region: FliJ; cl09161 1538002513 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 1538002514 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1538002515 Flagellar hook capping protein; Region: FlgD; cl04347 1538002516 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 1538002517 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 1538002518 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1538002519 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1538002520 Flagellar protein (FlbD); Region: FlbD; cl00683 1538002521 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1538002522 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 1538002523 FliP family; Region: FliP; cl00593 1538002524 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1538002525 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 1538002526 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1538002527 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 1538002528 FHIPEP family; Region: FHIPEP; cl07980 1538002529 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 1538002530 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1538002531 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538002532 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1538002533 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 1538002534 P-loop; other site 1538002535 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 1538002536 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1538002537 PilZ domain; Region: PilZ; cl01260 1538002538 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 1538002539 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538002540 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1538002541 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...; Region: Sigma70_r4; cd06171 1538002542 DNA binding residues 1538002543 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 1538002544 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1538002545 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1538002546 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 1538002547 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1538002548 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1538002549 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-...; Region: CBS_pair; cl10010 1538002550 DRTGG domain; Region: DRTGG; cl12147 1538002551 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; cl09108 1538002552 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1538002553 DHHA2 domain; Region: DHHA2; pfam02833 1538002554 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1538002555 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1538002556 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1538002557 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; cl11391 1538002558 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1538002559 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1538002560 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1538002561 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538002562 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538002563 GTP-dependent nucleic acid-binding protein EngD; Reviewed; Region: PRK09601 1538002564 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 1538002565 G1 box; other site 1538002566 GTP/Mg2+ binding site; other site 1538002567 Switch I region; other site 1538002568 G2 box; other site 1538002569 Switch II region; other site 1538002570 G3 box; other site 1538002571 G4 box; other site 1538002572 G5 box; other site 1538002573 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 1538002574 cell division protein MraZ; Reviewed; Region: PRK00326 1538002575 MraZ protein; Region: MraZ; pfam02381 1538002576 MraZ protein; Region: MraZ; pfam02381 1538002577 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; cl12011 1538002578 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1538002579 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 1538002580 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 1538002581 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1538002582 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1538002583 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1538002584 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1538002585 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1538002586 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1538002587 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1538002588 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1538002589 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1538002590 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 1538002591 Mg++ binding site; other site 1538002592 putative catalytic motif; other site 1538002593 putative substrate binding site; other site 1538002594 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1538002595 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1538002596 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1538002597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 1538002598 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 1538002599 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 1538002600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 1538002601 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 1538002602 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1538002603 pyridoxal 5'-phosphate (PLP) binding site; other site 1538002604 catalytic residue; other site 1538002605 Protein of unknown function (DUF552); Region: DUF552; cl00775 1538002606 YGGT family; Region: YGGT; cl00508 1538002607 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1538002608 DivIVA protein; Region: DivIVA; pfam05103 1538002609 DivIVA domain; Region: DivI1A_domain; TIGR03544 1538002610 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1538002611 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1538002612 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1538002613 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 1538002614 RNA binding surface; other site 1538002615 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 1538002616 active site 1538002617 Permease family; Region: Xan_ur_permease; cl00967 1538002618 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 1538002619 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1538002620 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1538002621 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1538002622 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1538002623 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1538002624 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 1538002625 dimer interface; other site 1538002626 FMN binding site; other site 1538002627 VanZ like family; Region: VanZ; cl01971 1538002628 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 1538002629 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 1538002630 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 1538002631 ligand binding site; other site 1538002632 flexible hinge region; other site 1538002633 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1538002634 putative switch regulator; other site 1538002635 non-specific DNA interactions; other site 1538002636 DNA binding site 1538002637 sequence specific DNA binding site; other site 1538002638 putative cAMP binding site; other site 1538002639 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1538002640 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 1538002641 S-adenosylmethionine binding site; other site 1538002642 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538002643 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1538002644 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538002645 ATP binding site; other site 1538002646 Mg2+ binding site; other site 1538002647 G-X-G motif; other site 1538002648 Domain of unknown function (DUF955); Region: DUF955; cl01076 1538002649 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1538002650 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 1538002651 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1538002652 Walker A motif; other site 1538002653 ATP binding site; other site 1538002654 Walker B motif; other site 1538002655 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 1538002656 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 1538002657 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1538002658 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 1538002659 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1538002660 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1538002661 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1538002662 active site 1538002663 elongation factor P; Validated; Region: PRK00529 1538002664 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1538002665 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 1538002666 RNA binding site; other site 1538002667 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 1538002668 RNA binding site; other site 1538002669 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 1538002670 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 1538002671 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 1538002672 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 1538002673 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 1538002674 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; cl09803 1538002675 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 1538002676 Protein of unknown function (DUF322); Region: DUF322; cl00574 1538002677 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 1538002678 putative RNA binding site; other site 1538002679 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1538002680 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 1538002681 generic binding surface II; other site 1538002682 generic binding surface I; other site 1538002683 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 1538002684 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1538002685 substrate binding pocket; other site 1538002686 chain length determination region; other site 1538002687 substrate-Mg2+ binding site; other site 1538002688 catalytic residues; other site 1538002689 aspartate-rich region 1; other site 1538002690 active site lid residues 1538002691 aspartate-rich region 2; other site 1538002692 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1538002693 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 1538002694 TPP-binding site; other site 1538002695 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 1538002696 PYR/PP interface; other site 1538002697 dimer interface; other site 1538002698 TPP binding site; other site 1538002699 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1538002700 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1538002701 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 1538002702 RNA binding surface; other site 1538002703 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; cl12011 1538002704 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 1538002705 arginine repressor; Provisional; Region: argR; PRK00441 1538002706 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1538002707 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1538002708 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1538002709 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 1538002710 Walker A/P-loop; other site 1538002711 ATP binding site; other site 1538002712 Q-loop/lid; other site 1538002713 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 1538002714 ABC transporter signature motif; other site 1538002715 Walker B; other site 1538002716 D-loop; other site 1538002717 H-loop/switch region; other site 1538002718 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...; Region: PDZ_metalloprotease; cd00989 1538002719 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 1538002720 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 1538002721 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538002722 active site 1538002723 phosphorylation site 1538002724 intermolecular recognition site; other site 1538002725 dimerization interface; other site 1538002726 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 1538002727 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...; Region: ADPRase_NUDT5; cd03424 1538002728 dimer interface; other site 1538002729 ADP-ribose binding site; other site 1538002730 active site 1538002731 nudix motif; other site 1538002732 metal-binding site 1538002733 Integral membrane protein DUF95; Region: DUF95; cl00572 1538002734 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1538002735 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 1538002736 DNA binding site 1538002737 Int/Topo IB signature motif; other site 1538002738 active site 1538002739 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1538002740 Beta-lactamase; Region: Beta-lactamase; cl01009 1538002741 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1538002742 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1538002743 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1538002744 active site 1538002745 NTP binding site; other site 1538002746 metal binding triad; metal-binding site 1538002747 ScpA/B protein; Region: ScpA_ScpB; cl00598 1538002748 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 1538002749 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 1538002750 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 1538002751 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1538002752 Beta-lactamase; Region: Beta-lactamase; cl01009 1538002753 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1538002754 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 1538002755 C subunit; Region: rnfC; TIGR01945 1538002756 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 1538002757 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 1538002758 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 1538002759 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 alpha-; Region: HCP_like; cl00255 1538002760 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1538002761 FMN-binding domain; Region: FMN_bind; cl01081 1538002762 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 1538002763 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 1538002764 ferredoxin; Validated; Region: PRK07118 1538002765 Putative Fe-S cluster; Region: FeS; pfam04060 1538002766 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 alpha-; Region: HCP_like; cl00255 1538002767 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 1538002768 Protein of unknown function (DUF1312); Region: DUF1312; cl02206 1538002769 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 1538002770 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1538002771 active site 1538002772 motif I; other site 1538002773 motif II; other site 1538002774 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; cl11391 1538002775 Uncharacterized BCR, COG1937; Region: DUF156; cl00846 1538002776 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 1538002777 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 1538002778 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...; Region: SHMT; cd00378 1538002779 dimer interface; other site 1538002780 glycine-pyridoxal phosphate binding site; other site 1538002781 active site 1538002782 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1538002783 folate binding site; other site 1538002784 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...; Region: metallo-dependent_hydrolases; cl00281 1538002785 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1538002786 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1538002787 DNA binding residues 1538002788 putative dimer interface; other site 1538002789 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 1538002790 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...; Region: PurM-like; cl10019 1538002791 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 1538002792 dimerization interface; other site 1538002793 ATP binding site; other site 1538002794 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP...; Region: PurL_repeat2; cd02204 1538002795 dimerization interface; other site 1538002796 ATP binding site; other site 1538002797 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1538002798 putative active site; other site 1538002799 catalytic triad; other site 1538002800 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1538002801 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...; Region: SIS_RpiR; cd05013 1538002802 putative active site; other site 1538002803 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1538002804 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 1538002805 putative NAD(P) binding site; other site 1538002806 catalytic Zn binding site; other site 1538002807 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1538002808 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 1538002809 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 1538002810 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1538002811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538002812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538002813 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1538002814 gluconate transporter; Region: gntP; TIGR00791 1538002815 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; cl09110 1538002816 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 1538002817 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1538002818 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 1538002819 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1538002820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538002821 Entner-Doudoroff aldolase; Region: eda; TIGR01182 1538002822 KDPG and KHG aldolase. This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best...; Region: KDPG_aldolase; cd00452 1538002823 active site 1538002824 intersubunit interface; other site 1538002825 catalytic residue; other site 1538002826 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1538002827 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538002828 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538002829 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538002830 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 1538002831 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 1538002832 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 1538002833 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 ATP-dependent...; Region: HisRS-like_core; cd00773 1538002834 dimer interface; other site 1538002835 motif 1; other site 1538002836 active site 1538002837 motif 2; other site 1538002838 motif 3; other site 1538002839 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...; Region: PBPb; cl11400 1538002840 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1538002841 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 1538002842 NAD binding site; other site 1538002843 dimerization interface; other site 1538002844 product binding site; other site 1538002845 substrate binding site; other site 1538002846 zinc binding site; other site 1538002847 catalytic residues; other site 1538002848 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1538002849 putative active site pocket; other site 1538002850 4-fold oligomerization interface; other site 1538002851 metal binding residues; metal-binding site 1538002852 3-fold/trimer interface; other site 1538002853 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1538002854 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1538002855 putative active site; other site 1538002856 oxyanion strand; other site 1538002857 catalytic triad; other site 1538002858 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 1538002859 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1538002860 catalytic residues; other site 1538002861 histidinol-phosphate aminotransferase; Validated; Region: PRK00950 1538002862 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 1538002863 pyridoxal 5'-phosphate binding site; other site 1538002864 homodimer interface; other site 1538002865 catalytic residue; other site 1538002866 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)-formimino-5-; Region: HisF; cd04731 1538002867 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1538002868 substrate binding site; other site 1538002869 glutamase interaction surface; other site 1538002870 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 1538002871 Phosphoribosyl-ATP pyrophosphohydrolase; Region: PRA-PH; cl00345 1538002872 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1538002873 active site 1538002874 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538002875 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538002876 active site 1538002877 phosphorylation site 1538002878 intermolecular recognition site; other site 1538002879 dimerization interface; other site 1538002880 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...; Region: trans_reg_C; cd00383 1538002881 DNA binding site 1538002882 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538002883 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1538002884 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 trans-...; Region: HisKA; cd00082 1538002885 dimer interface; other site 1538002886 phosphorylation site 1538002887 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538002888 ATP binding site; other site 1538002889 Mg2+ binding site; other site 1538002890 G-X-G motif; other site 1538002891 Membrane transport protein; Region: Mem_trans; cl09117 1538002892 histidinol-phosphatase; Provisional; Region: PRK05588 1538002893 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 1538002894 Flavin Reductases; Region: FlaRed; cl00801 1538002895 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 1538002896 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1538002897 dimer interface; other site 1538002898 active site 1538002899 glycine loop; other site 1538002900 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1538002901 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; cl14056 1538002902 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538002903 active site 1538002904 phosphorylation site 1538002905 intermolecular recognition site; other site 1538002906 dimerization interface; other site 1538002907 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1538002908 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538002909 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1538002910 Predicted histidine kinase sensor domain; Region: Hist_Kin_Sens; pfam10114 1538002911 Histidine kinase; Region: His_kinase; pfam06580 1538002912 Histidine kinase-like ATPases; This family includes several ATP-binding 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 1538002913 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutL; COG4816 1538002914 Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 1538002915 putative hexamer interface; other site 1538002916 putative hexagonal pore; other site 1538002917 Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 1538002918 putative hexamer interface; other site 1538002919 putative hexagonal pore; other site 1538002920 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1538002921 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 1538002922 putative active site; other site 1538002923 metal-binding site 1538002924 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-...; Region: MIP; cd00333 1538002925 amphipathic channel; other site 1538002926 Asn-Pro-Ala signature motifs; other site 1538002927 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 1538002928 ethanolamine utilization protein EutJ family protein; Region: EutJ; TIGR02529 1538002929 Cell division protein FtsA; Region: FtsA; cl11496 1538002930 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 1538002931 Hexamer interface; other site 1538002932 Hexagonal pore residue; other site 1538002933 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1538002934 Hexamer/Pentamer interface; other site 1538002935 central pore; other site 1538002936 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 1538002937 Hemocyanin, copper containing domain; Region: Hemocyanin_M; pfam00372 1538002938 Cupin domain; Region: Cupin_2; cl09118 1538002939 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1538002940 Hexamer interface; other site 1538002941 Hexagonal pore residue; other site 1538002942 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1538002943 putative catalytic cysteine; other site 1538002944 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1538002945 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1538002946 Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 1538002947 Hexamer interface; other site 1538002948 Putative hexagonal pore residue; other site 1538002949 Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 1538002950 Hexamer interface; other site 1538002951 Putative hexagonal pore residue; other site 1538002952 recombination factor protein RarA; Reviewed; Region: PRK13342 1538002953 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...; Region: AAA; cd00009 1538002954 Walker A motif; other site 1538002955 ATP binding site; other site 1538002956 Walker B motif; other site 1538002957 arginine finger; other site 1538002958 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 1538002959 alanine racemase; Reviewed; Region: alr; PRK00053 1538002960 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1538002961 active site 1538002962 pyridoxal 5'-phosphate (PLP) binding site; other site 1538002963 dimer interface; other site 1538002964 substrate binding site; other site 1538002965 catalytic residues; other site 1538002966 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1538002967 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 1538002968 non-specific DNA binding site; other site 1538002969 salt bridge; other site 1538002970 sequence-specific DNA binding site; other site 1538002971 Cupin domain; Region: Cupin_2; cl09118 1538002972 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1538002973 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 1538002974 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 1538002975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538002976 dimer interface; other site 1538002977 conserved gate region; other site 1538002978 putative PBP binding loops; other site 1538002979 ABC-ATPase subunit interface; other site 1538002980 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1538002981 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 1538002982 Walker A/P-loop; other site 1538002983 ATP binding site; other site 1538002984 Q-loop/lid; other site 1538002985 ABC transporter signature motif; other site 1538002986 Walker B; other site 1538002987 D-loop; other site 1538002988 H-loop/switch region; other site 1538002989 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1538002990 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1538002991 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 1538002992 Walker A/P-loop; other site 1538002993 ATP binding site; other site 1538002994 Q-loop/lid; other site 1538002995 ABC transporter signature motif; other site 1538002996 Walker B; other site 1538002997 D-loop; other site 1538002998 H-loop/switch region; other site 1538002999 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1538003000 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics...; Region: rDP_like; cd01301 1538003001 active site 1538003002 dimer interface; other site 1538003003 Predicted transcriptional regulator [Transcription]; Region: COG1959 1538003004 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538003005 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1538003006 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 1538003007 pyridoxal 5'-phosphate binding pocket; other site 1538003008 catalytic residue; other site 1538003009 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1538003010 trimerization site; other site 1538003011 active site 1538003012 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 1538003013 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 1538003014 Domain of unknown function DUF20; Region: UPF0118; cl00465 1538003015 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1538003016 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 formation...; Region: AlaRS_core; cd00673 1538003017 motif 1; other site 1538003018 active site 1538003019 motif 2; other site 1538003020 motif 3; other site 1538003021 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1538003022 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 1538003023 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 1538003024 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1538003025 metal binding site 2; metal-binding site 1538003026 putative DNA binding helix; other site 1538003027 metal binding site 1; metal-binding site 1538003028 dimer interface; other site 1538003029 structural Zn2+ binding site; other site 1538003030 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1538003031 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538003032 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1538003033 Protein of unknown function (DUF964); Region: DUF964; cl01483 1538003034 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 1538003035 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 1538003036 G1 box; other site 1538003037 putative GEF interaction site; other site 1538003038 GTP/Mg2+ binding site; other site 1538003039 Switch I region; other site 1538003040 G2 box; other site 1538003041 G3 box; other site 1538003042 Switch II region; other site 1538003043 G4 box; other site 1538003044 G5 box; other site 1538003045 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 1538003046 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a...; Region: BipA_TypA_C; cd03710 1538003047 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1538003048 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 1538003049 S-adenosylmethionine binding site; other site 1538003050 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1538003051 Peptidase family U32; Region: Peptidase_U32; pfam01136 1538003052 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1538003053 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 1538003054 sporulation sigma factor SigK; Reviewed; Region: PRK05803 1538003055 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538003056 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...; Region: Sigma70_r4; cl01055 1538003057 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1538003058 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 1538003059 Walker A motif; other site 1538003060 ATP binding site; other site 1538003061 Walker B motif; other site 1538003062 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1538003063 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1538003064 DXD motif; other site 1538003065 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1538003066 Cell division protein FtsA; Region: FtsA; cl11496 1538003067 Cell division protein FtsA; Region: FtsA; cl11496 1538003068 cell division protein FtsZ; Validated; Region: PRK09330 1538003069 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...; Region: FtsZ_type1; cd02201 1538003070 nucleotide binding site; other site 1538003071 SulA interaction site; other site 1538003072 Sporulation factor SpoIIGA; Region: Peptidase_U4; cl04058 1538003073 sporulation sigma factor SigE; Reviewed; Region: PRK08301 1538003074 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538003075 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...; Region: Sigma70_r4; cd06171 1538003076 DNA binding residues 1538003077 sporulation sigma factor SigG; Reviewed; Region: PRK08215 1538003078 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538003079 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1538003080 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...; Region: Sigma70_r4; cd06171 1538003081 DNA binding residues 1538003082 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 1538003083 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1538003084 ATP cone domain; Region: ATP-cone; pfam03477 1538003085 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1538003086 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538003087 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538003088 active site 1538003089 phosphorylation site 1538003090 intermolecular recognition site; other site 1538003091 dimerization interface; other site 1538003092 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...; Region: trans_reg_C; cd00383 1538003093 DNA binding site 1538003094 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1538003095 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 connected by an extended linker. The...; Region: HAMP; cd06225 1538003096 dimerization interface; other site 1538003097 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1538003098 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 trans-...; Region: HisKA; cd00082 1538003099 dimer interface; other site 1538003100 phosphorylation site 1538003101 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538003102 ATP binding site; other site 1538003103 Mg2+ binding site; other site 1538003104 G-X-G motif; other site 1538003105 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538003106 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538003107 dimer interface; other site 1538003108 conserved gate region; other site 1538003109 putative PBP binding loops; other site 1538003110 ABC-ATPase subunit interface; other site 1538003111 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538003112 dimer interface; other site 1538003113 conserved gate region; other site 1538003114 putative PBP binding loops; other site 1538003115 ABC-ATPase subunit interface; other site 1538003116 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 1538003117 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 1538003118 Walker A/P-loop; other site 1538003119 ATP binding site; other site 1538003120 Q-loop/lid; other site 1538003121 ABC transporter signature motif; other site 1538003122 Walker B; other site 1538003123 D-loop; other site 1538003124 H-loop/switch region; other site 1538003125 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1538003126 PhoU domain; Region: PhoU; pfam01895 1538003127 PhoU domain; Region: PhoU; pfam01895 1538003128 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1538003129 Phosphate transporter family; Region: PHO4; cl00396 1538003130 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 1538003131 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; cl14056 1538003132 Protein of unknown function (DUF512); Region: DUF512; pfam04459 1538003133 GTP-binding protein EngA; Reviewed; Region: engA; PRK00093 1538003134 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 1538003135 G1 box; other site 1538003136 GTP/Mg2+ binding site; other site 1538003137 Switch I region; other site 1538003138 G2 box; other site 1538003139 Switch II region; other site 1538003140 G3 box; other site 1538003141 G4 box; other site 1538003142 G5 box; other site 1538003143 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 1538003144 G1 box; other site 1538003145 GTP/Mg2+ binding site; other site 1538003146 Switch I region; other site 1538003147 G2 box; other site 1538003148 G3 box; other site 1538003149 Switch II region; other site 1538003150 G4 box; other site 1538003151 G5 box; other site 1538003152 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1538003153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538003154 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1538003155 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 1538003156 hypothetical protein; Provisional; Region: PRK11820 1538003157 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1538003158 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1538003159 Domain of unknown function (DUF370); Region: DUF370; cl00898 1538003160 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1538003161 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and...; Region: GMPK; cd00071 1538003162 catalytic site; other site 1538003163 G-X2-G-X-G-K; other site 1538003164 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl00765 1538003165 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1538003166 Flavoprotein; Region: Flavoprotein; cl08021 1538003167 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 1538003168 primosome assembly protein PriA; Validated; Region: PRK05580 1538003169 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 1538003170 ATP binding site; other site 1538003171 putative Mg++ binding site; other site 1538003172 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; cl12029 1538003173 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(...; Region: Pep_deformylase; cd00487 1538003174 active site 1538003175 catalytic residues; other site 1538003176 metal-binding site 1538003177 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1538003178 Formyl transferase; Region: Formyl_trans_N; cl00395 1538003179 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 1538003180 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 1538003181 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 1538003182 putative RNA binding site; other site 1538003183 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1538003184 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; cl12011 1538003185 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1538003186 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; cl14056 1538003187 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1538003188 active site 1538003189 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1538003190 active site 1538003191 ATP binding site; other site 1538003192 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1538003193 substrate binding site; other site 1538003194 activation loop (A-loop); other site 1538003195 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 1538003196 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 1538003197 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 1538003198 ribosome-associated GTPase; Reviewed; Region: PRK00098 1538003199 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 1538003200 GTPase/OB domain interface; other site 1538003201 GTPase/Zn-binding domain interface; other site 1538003202 GTP/Mg2+ binding site; other site 1538003203 G4 box; other site 1538003204 G5 box; other site 1538003205 G1 box; other site 1538003206 Switch I region; other site 1538003207 G2 box; other site 1538003208 G3 box; other site 1538003209 Switch II region; other site 1538003210 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...; Region: RPE; cd00429 1538003211 substrate binding site; other site 1538003212 hexamer interface; other site 1538003213 metal-binding site 1538003214 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1538003215 Thiamine pyrophosphokinase; Region: TPK; cd07995 1538003216 active site 1538003217 dimerization interface; other site 1538003218 thiamine binding site; other site 1538003219 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 1538003220 Protein of unknown function (DUF322); Region: DUF322; cl00574 1538003221 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1538003222 DAK2 domain; Region: Dak2; cl03685 1538003223 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1538003224 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 four-...; Region: RecG_wedge_OBF; cd04488 1538003225 ssDNA binding site; other site 1538003226 generic binding surface II; other site 1538003227 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 1538003228 ATP binding site; other site 1538003229 putative Mg++ binding site; other site 1538003230 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 1538003231 nucleotide binding region; other site 1538003232 ATP-binding site; other site 1538003233 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 1538003234 S-adenosylmethionine binding site; other site 1538003235 Phosphopantetheine adenylyltransferase; Region: PPAT_a; cd02163 1538003236 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 1538003237 active site 1538003238 substrate binding site; other site 1538003239 active site motif 1538003240 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 1538003241 hypothetical protein; Provisional; Region: PRK13670 1538003242 Protein of unknown function (DUF795); Region: DUF795; cl14188 1538003243 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 1538003244 Acetokinase family; Region: Acetate_kinase; cl01029 1538003245 acetate kinase; Reviewed; Region: PRK12440 1538003246 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1538003247 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 1538003248 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 1538003249 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1538003250 ribonuclease III; Reviewed; Region: rnc; PRK00102 1538003251 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 post-...; Region: RIBOc; cd00593 1538003252 dimerization interface; other site 1538003253 active site 1538003254 metal-binding site 1538003255 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...; Region: DSRM; cd00048 1538003256 dsRNA binding site; other site 1538003257 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 1538003258 Radical SAM; Region: Elp3; smart00729 1538003259 FeS/SAM binding site; other site 1538003260 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1538003261 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 1538003262 Walker A/P-loop; other site 1538003263 ATP binding site; other site 1538003264 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 1538003265 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 1538003266 ABC transporter signature motif; other site 1538003267 Walker B; other site 1538003268 D-loop; other site 1538003269 H-loop/switch region; other site 1538003270 Signal recognition particle GTPase [Intracellular trafficking and secretion]; Region: FtsY; COG0552 1538003271 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 1538003272 P loop; other site 1538003273 GTP binding site; other site 1538003274 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...; Region: Sigma70_r4; cl01055 1538003275 signal recognition particle protein; Region: ffh; TIGR00959 1538003276 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1538003277 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 1538003278 P loop; other site 1538003279 GTP binding site; other site 1538003280 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1538003281 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 1538003282 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 1538003283 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1538003284 RimM N-terminal domain; Region: RimM; pfam01782 1538003285 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 1538003286 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 1538003287 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 1538003288 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 1538003289 Catalytic site; other site 1538003290 ribosomal biogenesis GTPase; Reviewed; Region: rbgA; PRK09563 1538003291 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases...; Region: YlqF; cd01856 1538003292 GTP/Mg2+ binding site; other site 1538003293 G4 box; other site 1538003294 G5 box; other site 1538003295 G1 box; other site 1538003296 Switch I region; other site 1538003297 G2 box; other site 1538003298 G3 box; other site 1538003299 Switch II region; other site 1538003300 bacterial Ribonuclease HII-like; Region: RNaseH_typeII_bacteria_HII_like; cd07182 1538003301 active site 1538003302 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 1538003303 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1538003304 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...; Region: AAA; cd00009 1538003305 Walker A motif; other site 1538003306 ATP binding site; other site 1538003307 Walker B motif; other site 1538003308 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1538003309 DNA topoisomerase I; Validated; Region: PRK05582 1538003310 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 1538003311 active site 1538003312 interdomain interaction site; other site 1538003313 putative metal-binding site; other site 1538003314 nucleotide binding site; other site 1538003315 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...; Region: TOP1Ac; cd00186 1538003316 domain I; other site 1538003317 DNA binding groove 1538003318 phosphate binding site; other site 1538003319 domain II; other site 1538003320 domain III; other site 1538003321 nucleotide binding site; other site 1538003322 catalytic site; other site 1538003323 domain IV; other site 1538003324 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 1538003325 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 1538003326 transcriptional repressor CodY; Validated; Region: PRK04158 1538003327 CodY GAF-like domain; Region: CodY; pfam06018 1538003328 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 1538003329 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 1538003330 rRNA interaction site; other site 1538003331 S8 interaction site; other site 1538003332 putative laminin-1 binding site; other site 1538003333 elongation factor Ts; Provisional; Region: tsf; PRK09377 1538003334 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 1538003335 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 1538003336 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control...; Region: AAK_UMPK-PyrH-Ec; cd04254 1538003337 putative nucleotide binding site; other site 1538003338 uridine monophosphate binding site; other site 1538003339 homohexameric interface; other site 1538003340 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 round of...; Region: RRF; cd00520 1538003341 hinge region; other site 1538003342 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 1538003343 catalytic residue; other site 1538003344 putative FPP diphosphate binding site; other site 1538003345 putative FPP binding hydrophobic cleft; other site 1538003346 dimer interface; other site 1538003347 putative IPP diphosphate binding site; other site 1538003348 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 1538003349 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1538003350 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1538003351 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1538003352 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1538003353 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 1538003354 active site 1538003355 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...; Region: PDZ_metalloprotease; cd00989 1538003356 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1538003357 putative substrate binding region; other site 1538003358 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; cl11686 1538003359 GcpE protein; Region: GcpE; pfam04551 1538003360 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 1538003361 hypothetical protein; Reviewed; Region: PRK00092 1538003362 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 1538003363 Sm1 motif; other site 1538003364 D3 - B interaction site; other site 1538003365 D1 - D2 interaction site; other site 1538003366 Hfq - Hfq interaction site; other site 1538003367 RNA binding pocket; other site 1538003368 Sm2 motif; other site 1538003369 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1538003370 NusA N-terminal domain; Region: NusA_N; pfam08529 1538003371 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...; Region: S1_NusA; cd04455 1538003372 RNA binding site; other site 1538003373 homodimer interface; other site 1538003374 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 1538003375 G-X-X-G motif; other site 1538003376 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 1538003377 putative RNA binding cleft; other site 1538003378 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1538003379 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1538003380 translation initiation factor IF-2; Region: IF-2; TIGR00487 1538003381 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1538003382 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 1538003383 G1 box; other site 1538003384 putative GEF interaction site; other site 1538003385 GTP/Mg2+ binding site; other site 1538003386 Switch I region; other site 1538003387 G2 box; other site 1538003388 G3 box; other site 1538003389 Switch II region; other site 1538003390 G4 box; other site 1538003391 G5 box; other site 1538003392 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...; Region: IF2_mtIF2_II; cd03702 1538003393 Translation-initiation factor 2; Region: IF-2; pfam11987 1538003394 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...; Region: mtIF2_IVc; cd03692 1538003395 Ribosome-binding factor A; Region: RBFA; cl00542 1538003396 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1538003397 DHH family; Region: DHH; pfam01368 1538003398 DHHA1 domain; Region: DHHA1; pfam02272 1538003399 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 1538003400 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 1538003401 RNA binding site; other site 1538003402 active site 1538003403 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1538003404 riboflavin kinase, C-terminal domain of the bifunctional riboflavin biosynthesis protein; Region: Flavokinase_C; cd02064 1538003405 active site 1538003406 Riboflavin kinase; Region: Flavokinase; pfam01687 1538003407 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...; Region: Ribosomal_S15p_S13e; cd00353 1538003408 16S/18S rRNA binding site; other site 1538003409 S13e-L30e interaction site; other site 1538003410 25S rRNA binding site; other site 1538003411 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1538003412 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 1538003413 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 1538003414 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1538003415 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 1538003416 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 1538003417 putative nucleic acid binding region; other site 1538003418 G-X-X-G motif; other site 1538003419 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 1538003420 RNA binding site; other site 1538003421 domain interface; other site 1538003422 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1538003423 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1538003424 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1538003425 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 1538003426 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cl11392 1538003427 active site 1538003428 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1538003429 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538003430 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 1538003431 MiaB-like tRNA modifying enzyme YliG, TIGR01125; Region: TIGR01125 1538003432 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1538003433 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 1538003434 FeS/SAM binding site; other site 1538003435 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1538003436 recombinase A; Provisional; Region: recA; PRK09354 1538003437 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 1538003438 hexamer interface; other site 1538003439 Walker A motif; other site 1538003440 ATP binding site; other site 1538003441 Walker B motif; other site 1538003442 phosphodiesterase; Provisional; Region: PRK12704 1538003443 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1538003444 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 1538003445 UbiA prenyltransferase family; Region: UbiA; cl00337 1538003446 hypothetical protein; Provisional; Region: PRK02971 1538003447 aspartate aminotransferase; Provisional; Region: PRK06108 1538003448 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 1538003449 pyridoxal 5'-phosphate binding site; other site 1538003450 homodimer interface; other site 1538003451 catalytic residue; other site 1538003452 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 1538003453 dimerization domain swap beta strand; other site 1538003454 regulatory protein interface; other site 1538003455 active site 1538003456 regulatory phosphorylation site; other site 1538003457 Domain of unknown function (DUF378); Region: DUF378; cl00943 1538003458 adenylosuccinate lyase; Provisional; Region: PRK08937 1538003459 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 1538003460 tetramer interface; other site 1538003461 active site 1538003462 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK00574 1538003463 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1538003464 active site 1538003465 HIGH motif; other site 1538003466 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1538003467 KMSKS motif; other site 1538003468 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 1538003469 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl12058 1538003470 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1538003471 Beta-lactamase; Region: Beta-lactamase; cl01009 1538003472 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 1538003473 putative active site; other site 1538003474 putative CoA binding site; other site 1538003475 nudix motif; other site 1538003476 metal-binding site 1538003477 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1538003478 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...; Region: NAPRTase_A; cd01570 1538003479 active site 1538003480 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- (beta-...; Region: TMP_TenI; cd00564 1538003481 thiamine phosphate binding site; other site 1538003482 active site 1538003483 pyrophosphate binding site; other site 1538003484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538003485 active site 1538003486 phosphorylation site 1538003487 intermolecular recognition site; other site 1538003488 dimerization interface; other site 1538003489 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538003490 Cache domain; Region: Cache_1; pfam02743 1538003491 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1538003492 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538003493 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538003494 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1538003495 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538003496 Peptidase family M48; Region: Peptidase_M48; cl12018 1538003497 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1538003498 active site 1538003499 catalytic residues; other site 1538003500 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; cl09108 1538003501 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1538003502 conserved cys residue; other site 1538003503 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; cl06815 1538003504 putative transporter; Provisional; Region: PRK11462 1538003505 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1538003506 Cupin domain; Region: Cupin_2; cl09118 1538003507 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1538003508 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538003509 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538003510 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538003511 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1538003512 active site 1538003513 catalytic residues; other site 1538003514 RNA polymerase factor sigma-70; Validated; Region: PRK06811 1538003515 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538003516 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...; Region: Sigma70_r4; cl01055 1538003517 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538003518 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1538003519 Bacterial transcriptional regulator; Region: IclR; pfam01614 1538003520 Entner-Doudoroff aldolase; Region: eda; TIGR01182 1538003521 KDPG and KHG aldolase. This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best...; Region: KDPG_aldolase; cd00452 1538003522 active site 1538003523 intersubunit interface; other site 1538003524 catalytic residue; other site 1538003525 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 1538003526 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1538003527 putative substrate translocation pore; other site 1538003528 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1538003529 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 1538003530 active site 1538003531 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(...; Region: Pep_deformylase; cd00487 1538003532 active site 1538003533 catalytic residues; other site 1538003534 metal-binding site 1538003535 hypothetical protein; Provisional; Region: PRK03881 1538003536 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 1538003537 AMMECR1; Region: AMMECR1; cl00911 1538003538 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 1538003539 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 1538003540 FeS/SAM binding site; other site 1538003541 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 1538003542 Cupin domain; Region: Cupin_2; cl09118 1538003543 AzlC protein; Region: AzlC; cl00570 1538003544 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1538003545 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 1538003546 non-specific DNA binding site; other site 1538003547 salt bridge; other site 1538003548 sequence-specific DNA binding site; other site 1538003549 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1538003550 macrophage migration inhibition factor-like protein; Provisional; Region: PTZ00397 1538003551 Macrophage migration inhibitory factor (MIF); Region: MIF; pfam01187 1538003552 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 1538003553 catalytic residue; other site 1538003554 Domain of unknown function DUF20; Region: UPF0118; cl00465 1538003555 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1538003556 Cache domain; Region: Cache_1; pfam02743 1538003557 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538003558 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538003559 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538003560 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 trans-...; Region: HisKA; cd00082 1538003561 dimer interface; other site 1538003562 phosphorylation site 1538003563 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538003564 ATP binding site; other site 1538003565 Mg2+ binding site; other site 1538003566 G-X-G motif; other site 1538003567 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538003568 active site 1538003569 phosphorylation site 1538003570 intermolecular recognition site; other site 1538003571 dimerization interface; other site 1538003572 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...; Region: trans_reg_C; cd00383 1538003573 DNA binding site 1538003574 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538003575 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 1538003576 Walker A/P-loop; other site 1538003577 ATP binding site; other site 1538003578 Q-loop/lid; other site 1538003579 ABC transporter signature motif; other site 1538003580 Walker B; other site 1538003581 D-loop; other site 1538003582 H-loop/switch region; other site 1538003583 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200; cl01717 1538003584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200; cl01717 1538003585 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1538003586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538003587 active site 1538003588 phosphorylation site 1538003589 intermolecular recognition site; other site 1538003590 dimerization interface; other site 1538003591 LytTr DNA-binding domain; Region: LytTR; cl04498 1538003592 Cache domain; Region: Cache_1; pfam02743 1538003593 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538003594 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538003595 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1538003596 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1538003597 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538003598 Sodium:solute symporter family; Region: SSF; cl00456 1538003599 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1538003600 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1538003601 Ligand binding site; other site 1538003602 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1538003603 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1538003604 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1538003605 FAD binding domain; Region: FAD_binding_4; cl10516 1538003606 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1538003607 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1538003608 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538003609 DNA binding site 1538003610 FCD domain; Region: FCD; cl11656 1538003611 Predicted membrane protein [Function unknown]; Region: COG1297; cl14607 1538003612 Predicted membrane protein [Function unknown]; Region: COG1297; cl14607 1538003613 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1538003614 FeoA domain; Region: FeoA; cl00838 1538003615 FeoA domain; Region: FeoA; cl00838 1538003616 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1538003617 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 1538003618 G1 box; other site 1538003619 GTP/Mg2+ binding site; other site 1538003620 Switch I region; other site 1538003621 G2 box; other site 1538003622 G3 box; other site 1538003623 Switch II region; other site 1538003624 G4 box; other site 1538003625 G5 box; other site 1538003626 Nucleoside recognition; Region: Gate; cl00486 1538003627 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1538003628 Nucleoside recognition; Region: Gate; cl00486 1538003629 CRISPR locus-related DNA-binding protein; Region: cas_HTH; TIGR01884 1538003630 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538003631 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 1538003632 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 1538003633 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 1538003634 B12 binding site; other site 1538003635 Radical SAM; Region: Elp3; smart00729 1538003636 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; cl14056 1538003637 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538003638 ABC transporter signature motif; other site 1538003639 Walker B; other site 1538003640 D-loop; other site 1538003641 H-loop/switch region; other site 1538003642 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1538003643 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 1538003644 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538003645 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538003646 Cache domain; Region: Cache_2; pfam08269 1538003647 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538003648 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538003649 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538003650 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1538003651 DNA binding residues 1538003652 dimer interface; other site 1538003653 acetyl-CoA carboxylase; Region: PLN02767 1538003654 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538003655 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 1538003656 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538003657 putative substrate translocation pore; other site 1538003658 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1538003659 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 1538003660 ligand binding site; other site 1538003661 flexible hinge region; other site 1538003662 short chain dehydrogenase; Provisional; Region: PRK06914 1538003663 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538003664 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538003665 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538003666 active site 1538003667 phosphorylation site 1538003668 intermolecular recognition site; other site 1538003669 dimerization interface; other site 1538003670 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...; Region: trans_reg_C; cd00383 1538003671 DNA binding site 1538003672 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1538003673 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538003674 ATP binding site; other site 1538003675 Mg2+ binding site; other site 1538003676 G-X-G motif; other site 1538003677 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 1538003678 MatE; Region: MatE; pfam01554 1538003679 MatE; Region: MatE; pfam01554 1538003680 Cupin domain; Region: Cupin_2; cl09118 1538003681 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1538003682 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1538003683 DNA binding residues 1538003684 putative dimer interface; other site 1538003685 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538003686 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1538003687 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1538003688 active site 1538003689 metal-binding site 1538003690 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538003691 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538003692 Walker A/P-loop; other site 1538003693 ATP binding site; other site 1538003694 Q-loop/lid; other site 1538003695 ABC transporter signature motif; other site 1538003696 Walker B; other site 1538003697 D-loop; other site 1538003698 H-loop/switch region; other site 1538003699 Predicted permease; Region: FtsX; cl11418 1538003700 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 1538003701 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538003702 putative substrate translocation pore; other site 1538003703 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 1538003704 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538003705 putative substrate translocation pore; other site 1538003706 aspartate aminotransferase; Provisional; Region: PRK07681 1538003707 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 1538003708 pyridoxal 5'-phosphate binding site; other site 1538003709 homodimer interface; other site 1538003710 catalytic residue; other site 1538003711 Predicted permease; Region: FtsX; cl11418 1538003712 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1538003713 Predicted permease; Region: FtsX; cl11418 1538003714 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538003715 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538003716 Walker A/P-loop; other site 1538003717 ATP binding site; other site 1538003718 Q-loop/lid; other site 1538003719 ABC transporter signature motif; other site 1538003720 Walker B; other site 1538003721 D-loop; other site 1538003722 H-loop/switch region; other site 1538003723 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1538003724 UvrD/REP helicase; Region: UvrD-helicase; cl14126 1538003725 UvrD/REP helicase; Region: UvrD-helicase; cl14126 1538003726 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 1538003727 active site 1538003728 8-oxo-dGMP binding site; other site 1538003729 nudix motif; other site 1538003730 metal-binding site 1538003731 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538003732 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538003733 phosphoenolpyruvate synthase; Validated; Region: PRK06241 1538003734 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1538003735 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1538003736 VanZ like family; Region: VanZ; cl01971 1538003737 Beta-lactamase; Region: Beta-lactamase; cl01009 1538003738 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 trans-...; Region: HisKA; cd00082 1538003739 dimer interface; other site 1538003740 phosphorylation site 1538003741 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538003742 ATP binding site; other site 1538003743 Mg2+ binding site; other site 1538003744 G-X-G motif; other site 1538003745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538003746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538003747 active site 1538003748 phosphorylation site 1538003749 intermolecular recognition site; other site 1538003750 dimerization interface; other site 1538003751 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...; Region: trans_reg_C; cd00383 1538003752 DNA binding site 1538003753 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538003754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538003755 active site 1538003756 phosphorylation site 1538003757 intermolecular recognition site; other site 1538003758 dimerization interface; other site 1538003759 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...; Region: trans_reg_C; cd00383 1538003760 DNA binding site 1538003761 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1538003762 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538003763 ATP binding site; other site 1538003764 Mg2+ binding site; other site 1538003765 G-X-G motif; other site 1538003766 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1538003767 Active site serine; active site 1538003768 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538003769 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538003770 Walker A/P-loop; other site 1538003771 ATP binding site; other site 1538003772 Q-loop/lid; other site 1538003773 ABC transporter signature motif; other site 1538003774 Walker B; other site 1538003775 D-loop; other site 1538003776 H-loop/switch region; other site 1538003777 Predicted permease; Region: FtsX; cl11418 1538003778 Protein of unknown function (DUF429); Region: DUF429; cl12046 1538003779 UV-endonuclease UvdE; Region: UvdE; cl10036 1538003780 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 1538003781 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...; Region: DnaJ; cl02542 1538003782 HSP70 interaction site; other site 1538003783 HIRAN domain; Region: HIRAN; pfam08797 1538003784 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 1538003785 dnd system-associated protein 3; Region: dnd_assoc_3; TIGR03238 1538003786 dnd system-associated protein 1; Region: dnd_assoc_1; TIGR03236 1538003787 dnd system-associated protein 2; Region: dnd_assoc_2; TIGR03237 1538003788 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538003789 DGQHR domain; Region: DGQHR; cl14002 1538003790 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1538003791 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 1538003792 pyridoxal 5'-phosphate binding pocket; other site 1538003793 catalytic residue; other site 1538003794 Domain of unknown function (DUF1832); Region: DUF1832; cl07463 1538003795 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 1538003796 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538003797 Walker A/P-loop; other site 1538003798 ATP binding site; other site 1538003799 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 1538003800 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1538003801 Active Sites; active site 1538003802 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 1538003803 DGQHR domain; Region: DGQHR; cl14002 1538003804 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1538003805 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1538003806 active site 1538003807 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1538003808 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1538003809 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1538003810 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538003811 metal-binding site 1538003812 active site 1538003813 I-site; other site 1538003814 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 1538003815 SWIM zinc finger; Region: SWIM; cl11618 1538003816 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1538003817 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1538003818 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 1538003819 ATP binding site; other site 1538003820 putative Mg++ binding site; other site 1538003821 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 1538003822 nucleotide binding region; other site 1538003823 ATP-binding site; other site 1538003824 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 1538003825 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1538003826 VanW like protein; Region: VanW; pfam04294 1538003827 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1538003828 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 1538003829 non-specific DNA binding site; other site 1538003830 salt bridge; other site 1538003831 sequence-specific DNA binding site; other site 1538003832 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 1538003833 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 1538003834 catalytic loop; other site 1538003835 iron binding site; other site 1538003836 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1538003837 hydrogenases, Fe-only; Region: Fe_only_hydrog; TIGR02512 1538003838 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1538003839 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 1538003840 dimer interface; other site 1538003841 [2Fe-2S] cluster binding site; other site 1538003842 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1538003843 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 1538003844 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 1538003845 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1538003846 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 1538003847 4Fe-4S binding domain; Region: Fer4; pfam00037 1538003848 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...; Region: TRX_Fd_NuoE; cd03064 1538003849 putative dimer interface; other site 1538003850 [2Fe-2S] cluster binding site; other site 1538003851 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538003852 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1538003853 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; cl12031 1538003854 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 1538003855 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538003856 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 1538003857 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 1538003858 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cl07841 1538003859 oligomer interface; other site 1538003860 active site 1538003861 NeuB family; Region: NeuB; cl00496 1538003862 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1538003863 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 1538003864 Phage integrase family; Region: Phage_integrase; pfam00589 1538003865 DNA binding site 1538003866 Int/Topo IB signature motif; other site 1538003867 active site 1538003868 PAS fold; Region: PAS_3; pfam08447 1538003869 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538003870 metal-binding site 1538003871 active site 1538003872 I-site; other site 1538003873 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 1538003874 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1538003875 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538003876 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538003877 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 1538003878 d-galactonate transporter; Region: 2A0114; TIGR00893 1538003879 putative substrate translocation pore; other site 1538003880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1538003881 MORN repeat; Region: MORN; pfam02493 1538003882 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1538003883 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...; Region: PBPb; cd00134 1538003884 substrate binding pocket; other site 1538003885 membrane-bound complex binding site; other site 1538003886 hinge residues; other site 1538003887 PAS fold; Region: PAS_4; pfam08448 1538003888 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538003889 metal-binding site 1538003890 active site 1538003891 I-site; other site 1538003892 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1538003893 Zn2+ binding site; other site 1538003894 Mg2+ binding site; other site 1538003895 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 1538003896 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 1538003897 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1538003898 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1538003899 DNA binding residues 1538003900 dimer interface; other site 1538003901 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538003902 Predicted esterase [General function prediction only]; Region: COG0400 1538003903 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; cl12031 1538003904 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1538003905 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 1538003906 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 1538003907 CAAX amino terminal protease family; Region: Abi; cl00558 1538003908 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538003909 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538003910 active site 1538003911 phosphorylation site 1538003912 intermolecular recognition site; other site 1538003913 dimerization interface; other site 1538003914 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...; Region: trans_reg_C; cd00383 1538003915 DNA binding site 1538003916 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538003917 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 trans-...; Region: HisKA; cd00082 1538003918 dimer interface; other site 1538003919 phosphorylation site 1538003920 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538003921 ATP binding site; other site 1538003922 Mg2+ binding site; other site 1538003923 G-X-G motif; other site 1538003924 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1538003925 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as...; Region: OYE_like_FMN_family; cd02803 1538003926 active site 1538003927 FMN binding site; other site 1538003928 substrate binding site; other site 1538003929 putative catalytic residue; other site 1538003930 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1538003931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538003932 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1538003933 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 1538003934 active site 1538003935 metal-binding site 1538003936 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1538003937 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...; Region: Nudix_Hydrolase; cl00447 1538003938 nudix motif; other site 1538003939 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1538003940 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 1538003941 Walker A/P-loop; other site 1538003942 ATP binding site; other site 1538003943 Q-loop/lid; other site 1538003944 ABC transporter signature motif; other site 1538003945 Walker B; other site 1538003946 D-loop; other site 1538003947 H-loop/switch region; other site 1538003948 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1538003949 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538003950 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538003951 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1538003952 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 1538003953 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1538003954 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538003955 Walker A/P-loop; other site 1538003956 ATP binding site; other site 1538003957 Q-loop/lid; other site 1538003958 ABC transporter signature motif; other site 1538003959 Walker B; other site 1538003960 D-loop; other site 1538003961 H-loop/switch region; other site 1538003962 threonine dehydratase; Provisional; Region: PRK08198 1538003963 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1538003964 tetramer interface; other site 1538003965 pyridoxal 5'-phosphate binding site; other site 1538003966 catalytic residue; other site 1538003967 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 1538003968 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 1538003969 Permease family; Region: Xan_ur_permease; cl00967 1538003970 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...; Region: AAA; cd00009 1538003971 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1538003972 Walker A motif; other site 1538003973 ATP binding site; other site 1538003974 Walker B motif; other site 1538003975 arginine finger; other site 1538003976 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538003977 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1538003978 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1538003979 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538003980 Walker A/P-loop; other site 1538003981 ATP binding site; other site 1538003982 Q-loop/lid; other site 1538003983 ABC transporter signature motif; other site 1538003984 Walker B; other site 1538003985 D-loop; other site 1538003986 H-loop/switch region; other site 1538003987 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1538003988 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1538003989 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 1538003990 Walker A/P-loop; other site 1538003991 ATP binding site; other site 1538003992 Q-loop/lid; other site 1538003993 ABC transporter signature motif; other site 1538003994 Walker B; other site 1538003995 D-loop; other site 1538003996 H-loop/switch region; other site 1538003997 Predicted transcriptional regulator [Transcription]; Region: COG2378 1538003998 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538003999 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 1538004000 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1538004001 MatE; Region: MatE; pfam01554 1538004002 MatE; Region: MatE; pfam01554 1538004003 Cupin domain; Region: Cupin_2; cl09118 1538004004 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1538004005 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538004006 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; cl10042 1538004007 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1538004008 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1538004009 FMN binding site; other site 1538004010 dimer interface; other site 1538004011 putative allantoin catabolism protein; Region: ura-cupin; TIGR03214 1538004012 allantoate amidohydrolase; Reviewed; Region: PRK09290 1538004013 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538004014 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538004015 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538004016 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1538004017 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 1538004018 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1538004019 carbamate kinase; Reviewed; Region: PRK12686 1538004020 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1538004021 putative substrate binding site; other site 1538004022 nucleotide binding site; other site 1538004023 nucleotide binding site; other site 1538004024 homodimer interface; other site 1538004025 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1538004026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538004027 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1538004028 Sodium:solute symporter family; Region: SSF; cl00456 1538004029 allantoinase; Provisional; Region: PRK06189 1538004030 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 1538004031 active site 1538004032 allantoinase; Provisional; Region: PRK06189 1538004033 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 1538004034 active site 1538004035 Sodium:solute symporter family; Region: SSF; cl00456 1538004036 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 1538004037 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 1538004038 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes...; Region: NADPH_oxidoreductase_1; cd02150 1538004039 putative FMN binding site; other site 1538004040 hypothetical protein; Provisional; Region: PRK03598 1538004041 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...; Region: Biotinyl_lipoyl_domains; cl11404 1538004042 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...; Region: Biotinyl_lipoyl_domains; cl11404 1538004043 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1538004044 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004045 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1538004046 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004047 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538004048 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538004049 active site 1538004050 phosphorylation site 1538004051 intermolecular recognition site; other site 1538004052 dimerization interface; other site 1538004053 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...; Region: trans_reg_C; cd00383 1538004054 DNA binding site 1538004055 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 trans-...; Region: HisKA; cd00082 1538004056 dimer interface; other site 1538004057 phosphorylation site 1538004058 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538004059 ATP binding site; other site 1538004060 Mg2+ binding site; other site 1538004061 G-X-G motif; other site 1538004062 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1538004063 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538004064 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538004065 Walker A/P-loop; other site 1538004066 ATP binding site; other site 1538004067 Q-loop/lid; other site 1538004068 ABC transporter signature motif; other site 1538004069 Walker B; other site 1538004070 D-loop; other site 1538004071 H-loop/switch region; other site 1538004072 Predicted permease; Region: FtsX; cl11418 1538004073 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1538004074 DNA binding residues 1538004075 dimer interface; other site 1538004076 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1538004077 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538004078 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538004079 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1538004080 active site 1538004081 catalytic residues; other site 1538004082 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1538004083 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These...; Region: MopB_3; cd02766 1538004084 putative [4Fe-4S] binding site; other site 1538004085 putative molybdopterin cofactor binding site; other site 1538004086 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-; Region: MopB_CT; cl09929 1538004087 molybdopterin cofactor binding site; other site 1538004088 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538004089 dimerization interface; other site 1538004090 Uncharacterized conserved protein [Function unknown]; Region: COG3875 1538004091 Uncharacterized conserved protein (DUF2088); Region: DUF2088; pfam09861 1538004092 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-...; Region: MIP; cd00333 1538004093 amphipathic channel; other site 1538004094 Asn-Pro-Ala signature motifs; other site 1538004095 AIR carboxylase; Region: AIRC; cl00310 1538004096 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1538004097 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538004098 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 1538004099 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1538004100 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1538004101 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 1538004102 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 1538004103 dimerization interface; other site 1538004104 putative DNA binding site; other site 1538004105 putative Zn2+ binding site; other site 1538004106 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 1538004107 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 1538004108 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538004109 ATP binding site; other site 1538004110 dimerization interface; other site 1538004111 metal-binding site 1538004112 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 1538004113 P loop; other site 1538004114 Nucleotide binding site; other site 1538004115 DTAP/Switch II; other site 1538004116 Switch I; other site 1538004117 Membrane transport protein; Region: Mem_trans; cl09117 1538004118 VanZ like family; Region: VanZ; cl01971 1538004119 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which...; Region: SERPIN; cl00137 1538004120 serpin-like protein; Provisional; Region: DpV83gp170; PHA02660 1538004121 reactive center loop; other site 1538004122 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 1538004123 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538004124 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...; Region: Sigma70_r4; cd06171 1538004125 DNA binding residues 1538004126 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 1538004127 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1538004128 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1538004129 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1538004130 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1538004131 PAS domain S-box; Region: sensory_box; TIGR00229 1538004132 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 1538004133 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538004134 metal-binding site 1538004135 active site 1538004136 I-site; other site 1538004137 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1538004138 Zn2+ binding site; other site 1538004139 Mg2+ binding site; other site 1538004140 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1538004141 Macrocin-O-methyltransferase (TylF); Region: TylF; pfam05711 1538004142 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1538004143 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1538004144 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004145 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1538004146 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1538004147 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 1538004148 putative substrate translocation pore; other site 1538004149 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 1538004150 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538004151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538004152 active site 1538004153 phosphorylation site 1538004154 intermolecular recognition site; other site 1538004155 dimerization interface; other site 1538004156 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...; Region: trans_reg_C; cd00383 1538004157 DNA binding site 1538004158 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1538004159 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 connected by an extended linker. The...; Region: HAMP; cd06225 1538004160 dimerization interface; other site 1538004161 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 trans-...; Region: HisKA; cd00082 1538004162 dimer interface; other site 1538004163 phosphorylation site 1538004164 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538004165 ATP binding site; other site 1538004166 Mg2+ binding site; other site 1538004167 G-X-G motif; other site 1538004168 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 1538004169 active site 1538004170 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 1538004171 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 1538004172 Predicted periplasmic protein (DUF2233); Region: DUF2233; cl10481 1538004173 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538004174 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 1538004175 putative substrate translocation pore; other site 1538004176 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1538004177 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1538004178 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1538004179 Transglycosylase; Region: Transgly; cl07896 1538004180 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 1538004181 Bacitracin resistance protein BacA; Region: BacA; cl00858 1538004182 Transglycosylase; Region: Transgly; cl07896 1538004183 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 1538004184 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1538004185 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 1538004186 active site 1538004187 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1538004188 FOG: CBS domain [General function prediction only]; Region: COG0517 1538004189 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 1538004190 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 1538004191 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538004192 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1538004193 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1538004194 active site 1538004195 metal-binding site 1538004196 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004197 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538004198 anthranilate synthase component I; Provisional; Region: PRK13570 1538004199 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1538004200 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1538004201 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1538004202 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1538004203 glutamine binding; other site 1538004204 catalytic triad; other site 1538004205 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1538004206 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1538004207 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1538004208 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 1538004209 active site 1538004210 product (indole) binding pocket; other site 1538004211 substrate (anthranilate) binding pocket; other site 1538004212 ribulose/triose binding site; other site 1538004213 phosphate binding site; other site 1538004214 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric...; Region: PRAI; cd00405 1538004215 active site 1538004216 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 1538004217 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1538004218 pyridoxal 5'-phosphate binding site; other site 1538004219 catalytic residue; other site 1538004220 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1538004221 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...; Region: Tryptophan_synthase_alpha; cd04724 1538004222 substrate binding site; other site 1538004223 active site 1538004224 catalytic residues; other site 1538004225 heterodimer interface; other site 1538004226 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 1538004227 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1538004228 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1538004229 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1538004230 catalytic Zn binding site; other site 1538004231 NAD binding site; other site 1538004232 structural Zn binding site; other site 1538004233 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1538004234 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as...; Region: OYE_like_FMN_family; cd02803 1538004235 active site 1538004236 FMN binding site; other site 1538004237 substrate binding site; other site 1538004238 putative catalytic residue; other site 1538004239 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1538004240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538004241 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538004242 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004243 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538004244 dimerization interface; other site 1538004245 TGF-beta propeptide; Region: TGFb_propeptide; pfam00688 1538004246 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 1538004247 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538004248 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...; Region: Sigma70_r4; cd06171 1538004249 DNA binding residues 1538004250 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004251 CAAX amino terminal protease family; Region: Abi; cl00558 1538004252 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1538004253 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1538004254 Active site serine; active site 1538004255 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004256 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 1538004257 MatE; Region: MatE; pfam01554 1538004258 MatE; Region: MatE; pfam01554 1538004259 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(...; Region: Pep_deformylase; cd00487 1538004260 active site 1538004261 catalytic residues; other site 1538004262 metal-binding site 1538004263 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1538004264 metal binding site 2; metal-binding site 1538004265 putative DNA binding helix; other site 1538004266 metal binding site 1; metal-binding site 1538004267 dimer interface; other site 1538004268 structural Zn2+ binding site; other site 1538004269 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1538004270 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538004271 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004273 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1538004274 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 1538004275 putative substrate translocation pore; other site 1538004276 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1538004277 Histidine kinase-like ATPases; This family includes several ATP-binding 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 1538004278 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1538004279 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538004280 active site 1538004281 phosphorylation site 1538004282 intermolecular recognition site; other site 1538004283 dimerization interface; other site 1538004284 LytTr DNA-binding domain; Region: LytTR; cl04498 1538004285 Protein of unknown function (DUF421); Region: DUF421; cl00990 1538004286 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1538004287 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism...; Region: L-Ala-DL-Glu_epimerase; cd03319 1538004288 active site 1538004289 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538004290 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538004291 Beta-lactamase; Region: Beta-lactamase; cl01009 1538004292 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538004293 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538004294 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 1538004295 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1538004296 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1538004297 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1538004298 putative catalytic cysteine; other site 1538004299 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1538004300 putative active site; other site 1538004301 metal-binding site 1538004302 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1538004303 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1538004304 putative catalytic cysteine; other site 1538004305 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1538004306 putative active site; other site 1538004307 metal-binding site 1538004308 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1538004309 UvrD/REP helicase; Region: UvrD-helicase; cl14126 1538004310 Phage integrase family; Region: Phage_integrase; pfam00589 1538004311 C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 1538004312 DNA binding site 1538004313 Int/Topo IB signature motif; other site 1538004314 active site 1538004315 catalytic residues; other site 1538004316 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 1538004317 non-specific DNA binding site; other site 1538004318 salt bridge; other site 1538004319 sequence-specific DNA binding site; other site 1538004320 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 1538004321 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 1538004322 non-specific DNA binding site; other site 1538004323 salt bridge; other site 1538004324 sequence-specific DNA binding site; other site 1538004325 reticulocyte binding/rhoptry protein; Region: 235kDa-fam; TIGR01612 1538004326 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1538004327 NlpC/P60 family; Region: NLPC_P60; cl11438 1538004328 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 catalyze...; Region: LT_GEWL; cd00254 1538004329 N-acetyl-D-glucosamine binding site; other site 1538004330 catalytic residue; other site 1538004331 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1538004332 large terminase protein; Provisional; Region: 17; PHA02533 1538004333 Terminase-like family; Region: Terminase_6; pfam03237 1538004334 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1538004335 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 1538004336 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK07418 1538004337 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538004338 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 1538004339 active site 1538004340 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 1538004341 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004342 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004343 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004344 Rubrerythrin [Energy production and conversion]; Region: COG1592 1538004345 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1538004346 binuclear metal center; other site 1538004347 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 ferredoxin-...; Region: rubredoxin_SM; cd00729 1538004348 iron binding site; other site 1538004349 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1538004350 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 1538004351 motif II; other site 1538004352 Protein of unknown function (DUF421); Region: DUF421; cl00990 1538004353 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...; Region: Aldo_ket_red; cd06660 1538004354 active site 1538004355 catalytic tetrad; other site 1538004356 Peptidase A4 family; Region: Peptidase_A4; pfam01828 1538004357 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1538004358 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 1538004359 putative ligand binding residues; other site 1538004360 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1538004361 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1538004362 dimer interface; other site 1538004363 putative functional site; other site 1538004364 putative MPT binding site; other site 1538004365 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1538004366 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 1538004367 putative metal binding site; other site 1538004368 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...; Region: TM_ABC_iron-siderophores_like; cd06550 1538004369 dimer interface; other site 1538004370 putative PBP binding regions; other site 1538004371 ABC-ATPase subunit interface; other site 1538004372 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538004373 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1538004374 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 1538004375 putative ligand binding residues; other site 1538004376 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1538004377 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1538004378 Walker A/P-loop; other site 1538004379 ATP binding site; other site 1538004380 Q-loop/lid; other site 1538004381 ABC transporter signature motif; other site 1538004382 Walker B; other site 1538004383 D-loop; other site 1538004384 H-loop/switch region; other site 1538004385 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538004386 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1538004387 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 1538004388 putative ligand binding residues; other site 1538004389 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...; Region: TroA-like; cl00262 1538004390 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 1538004391 putative ligand binding residues; other site 1538004392 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538004393 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538004394 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1538004395 Walker A/P-loop; other site 1538004396 ATP binding site; other site 1538004397 Q-loop/lid; other site 1538004398 ABC transporter signature motif; other site 1538004399 Walker B; other site 1538004400 D-loop; other site 1538004401 H-loop/switch region; other site 1538004402 Domain of unknown function (DUF364); Region: DUF364; cl00885 1538004403 Domain of unknown function (DUF364); Region: DUF364; cl00885 1538004404 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 1538004405 putative ligand binding residues; other site 1538004406 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1538004407 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1538004408 DNA binding residues 1538004409 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 1538004410 hydrogenases, Fe-only; Region: Fe_only_hydrog; TIGR02512 1538004411 4Fe-4S binding domain; Region: Fer4; pfam00037 1538004412 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1538004413 nascent polypeptide-associated complex protein; Reviewed; Region: nac; PRK06369 1538004414 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538004415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538004416 active site 1538004417 phosphorylation site 1538004418 intermolecular recognition site; other site 1538004419 dimerization interface; other site 1538004420 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...; Region: trans_reg_C; cd00383 1538004421 DNA binding site 1538004422 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538004423 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 trans-...; Region: HisKA; cd00082 1538004424 dimer interface; other site 1538004425 phosphorylation site 1538004426 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538004427 ATP binding site; other site 1538004428 Mg2+ binding site; other site 1538004429 G-X-G motif; other site 1538004430 cell division protein FtsA; Region: ftsA; TIGR01174 1538004431 Cell division protein FtsA; Region: FtsA; cl11496 1538004432 Cell division protein FtsA; Region: FtsA; cl11496 1538004433 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1538004434 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538004435 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1538004436 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 1538004437 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 1538004438 active site 1538004439 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1538004440 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 1538004441 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1538004442 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 N-...; Region: GltS; cd00713 1538004443 active site 1538004444 dimer interface; other site 1538004445 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1538004446 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...; Region: GltS_FMN; cd02808 1538004447 active site 1538004448 FMN binding site; other site 1538004449 substrate binding site; other site 1538004450 3Fe-4S cluster binding site; other site 1538004451 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 1538004452 domain interface; other site 1538004453 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1538004454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538004455 dipeptidase PepV; Reviewed; Region: PRK07318 1538004456 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538004457 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 1538004458 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 1538004459 putative active site; other site 1538004460 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004461 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 1538004462 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 1538004463 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1538004464 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...; Region: LuxR_C_like; cd06170 1538004465 DNA binding residues 1538004466 dimerization interface; other site 1538004467 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1538004468 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 alpha-; Region: HCP_like; cl00255 1538004469 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004470 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1538004471 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; cl12031 1538004472 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538004473 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1538004474 Transposase; Region: Transposase_9; pfam01548 1538004475 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1538004476 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1538004477 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 1538004478 B3/4 domain; Region: B3_4; cl11458 1538004479 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1538004480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538004481 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004482 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538004483 dimerization interface; other site 1538004484 Chromate transporter; Region: Chromate_transp; cl00902 1538004485 Chromate transporter; Region: Chromate_transp; cl00902 1538004486 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1538004487 conserved cys residue; other site 1538004488 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538004489 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 1538004490 non-specific DNA binding site; other site 1538004491 salt bridge; other site 1538004492 sequence-specific DNA binding site; other site 1538004493 Cache domain; Region: Cache_1; pfam02743 1538004494 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538004495 metal-binding site 1538004496 active site 1538004497 I-site; other site 1538004498 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_34; cd04693 1538004499 nudix motif; other site 1538004500 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1538004501 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004502 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1538004503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538004504 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1538004505 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538004506 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004507 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538004508 dimerization interface; other site 1538004509 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1538004510 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1538004511 dimer interface; other site 1538004512 active site 1538004513 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 1538004514 Ligand Binding Site; other site 1538004515 Molecular Tunnel; other site 1538004516 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538004517 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004518 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538004519 dimerization interface; other site 1538004520 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1538004521 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004522 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1538004523 hypothetical protein; Provisional; Region: PRK10281 1538004524 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; cl11391 1538004525 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1538004526 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 1538004527 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1538004528 active site 1538004529 motif I; other site 1538004530 motif II; other site 1538004531 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; cl11391 1538004532 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...; Region: Aldo_ket_red; cd06660 1538004533 active site 1538004534 catalytic tetrad; other site 1538004535 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538004536 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(...; Region: Pep_deformylase; cd00487 1538004537 active site 1538004538 catalytic residues; other site 1538004539 metal-binding site 1538004540 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 1538004541 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538004542 DNA binding site 1538004543 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 1538004544 pyridoxal 5'-phosphate binding site; other site 1538004545 homodimer interface; other site 1538004546 catalytic residue; other site 1538004547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538004548 active site 1538004549 phosphorylation site 1538004550 intermolecular recognition site; other site 1538004551 dimerization interface; other site 1538004552 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538004553 active site 1538004554 phosphorylation site 1538004555 intermolecular recognition site; other site 1538004556 dimerization interface; other site 1538004557 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1538004558 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1538004559 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 1538004560 DNA binding site 1538004561 active site 1538004562 A new structural DNA glycosylase; Region: AlkD_like; cd06561 1538004563 active site 1538004564 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1538004565 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538004566 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538004567 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 1538004568 ACS interaction site; other site 1538004569 CODH interaction site; other site 1538004570 cubane metal cluster (B-cluster); other site 1538004571 Ni-Fe-S cluster (C-cluster); other site 1538004572 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538004573 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 1538004574 putative hexamer interface; other site 1538004575 putative hexagonal pore; other site 1538004576 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1538004577 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1538004578 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 1538004579 putative MPT binding site; other site 1538004580 FIST N domain; Region: FIST; pfam08495 1538004581 FIST C domain; Region: FIST_C; pfam10442 1538004582 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538004583 metal-binding site 1538004584 active site 1538004585 I-site; other site 1538004586 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1538004587 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1538004588 DNA binding residues 1538004589 drug binding residues; other site 1538004590 dimer interface; other site 1538004591 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 1538004592 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 1538004593 4Fe-4S binding domain; Region: Fer4; pfam00037 1538004594 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1538004595 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes...; Region: NADPH_oxidoreductase_1; cd02150 1538004596 putative FMN binding site; other site 1538004597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004598 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1538004599 Bacterial SH3 domain; Region: SH3_3; cl02551 1538004600 Bacterial SH3 domain; Region: SH3_3; cl02551 1538004601 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004602 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004603 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004604 Predicted peptidase [General function prediction only]; Region: COG4099 1538004605 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; cl12031 1538004606 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538004607 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1538004608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538004609 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1538004610 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538004611 DNA binding site 1538004612 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; cl09110 1538004613 Yip1 domain; Region: Yip1; cl12048 1538004614 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1538004615 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538004616 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538004617 Walker A/P-loop; other site 1538004618 ATP binding site; other site 1538004619 Q-loop/lid; other site 1538004620 ABC transporter signature motif; other site 1538004621 Walker B; other site 1538004622 D-loop; other site 1538004623 H-loop/switch region; other site 1538004624 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1538004625 Predicted permease; Region: FtsX; cl11418 1538004626 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1538004627 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004628 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1538004629 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 1538004630 active site 1538004631 catalytic motif; other site 1538004632 Zn binding site; other site 1538004633 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family. DERA belongs to the class I aldolases and catalyzes a reversible aldol reaction between acetaldehyde and glyceraldehyde 3-phosphate to generate 2-deoxyribose 5-phosphate. DERA is unique in...; Region: DeoC; cd00959 1538004634 intersubunit interface; other site 1538004635 active site 1538004636 catalytic residue; other site 1538004637 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1538004638 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1538004639 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1538004640 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl12023 1538004641 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1538004642 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 1538004643 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1538004644 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1538004645 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1538004646 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 1538004647 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1244 1538004648 QueT transporter; Region: QueT; cl01932 1538004649 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 1538004650 xylose isomerase; Region: PLN02923 1538004651 D-xylulose kinase; Region: XylB; TIGR01312 1538004652 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 1538004653 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 1538004654 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 1538004655 Aldose 1-epimerase; Region: Aldose_epim; cl00476 1538004656 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1538004657 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 1538004658 putative substrate translocation pore; other site 1538004659 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 1538004660 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1538004661 ROK family; Region: ROK; cl09121 1538004662 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538004663 dimer interface; other site 1538004664 conserved gate region; other site 1538004665 putative PBP binding loops; other site 1538004666 ABC-ATPase subunit interface; other site 1538004667 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1538004668 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 1538004669 Walker A/P-loop; other site 1538004670 ATP binding site; other site 1538004671 Q-loop/lid; other site 1538004672 ABC transporter signature motif; other site 1538004673 Walker B; other site 1538004674 D-loop; other site 1538004675 H-loop/switch region; other site 1538004676 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...; Region: PBPb; cd00134 1538004677 substrate binding pocket; other site 1538004678 membrane-bound complex binding site; other site 1538004679 hinge residues; other site 1538004680 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 1538004681 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538004682 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538004683 Walker A/P-loop; other site 1538004684 ATP binding site; other site 1538004685 Q-loop/lid; other site 1538004686 ABC transporter signature motif; other site 1538004687 Walker B; other site 1538004688 D-loop; other site 1538004689 H-loop/switch region; other site 1538004690 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1538004691 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1538004692 active site 1538004693 catalytic triad; other site 1538004694 oxyanion hole; other site 1538004695 Glutathionylspermidine synthase; Region: GSP_synth; cl00503 1538004696 Glutathionylspermidine synthase; Region: GSP_synth; cl00503 1538004697 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 1538004698 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538004699 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1538004700 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1538004701 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 1538004702 putative active site; other site 1538004703 metal-binding site 1538004704 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 1538004705 non-specific DNA binding site; other site 1538004706 salt bridge; other site 1538004707 sequence-specific DNA binding site; other site 1538004708 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538004709 Glucose inhibited division protein A; Region: GIDA; pfam01134 1538004710 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1538004711 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1538004712 catalytic residues; other site 1538004713 catalytic nucleophile; other site 1538004714 Presynaptic Site I dimer interface; other site 1538004715 Synaptic Antiparallel dimer interface; other site 1538004716 Synaptic Flat tetramer interface; other site 1538004717 Synaptic Site I dimer interface; other site 1538004718 DNA binding site 1538004719 Recombinase; Region: Recombinase; pfam07508 1538004720 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 1538004721 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 1538004722 Glucose inhibited division protein A; Region: GIDA; pfam01134 1538004723 hypothetical protein; Provisional; Region: PRK05802 1538004724 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-...; Region: DHOD_e_trans_like; cd06192 1538004725 FAD binding pocket; other site 1538004726 FAD binding motif; other site 1538004727 phosphate binding motif; other site 1538004728 beta-alpha-beta structure motif; other site 1538004729 NAD binding pocket; other site 1538004730 Iron coordination center; other site 1538004731 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1538004732 EamA-like transporter family; Region: EamA; cl01037 1538004733 EamA-like transporter family; Region: EamA; cl01037 1538004734 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004735 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 1538004736 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004737 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004738 PAS domain S-box; Region: sensory_box; TIGR00229 1538004739 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1538004740 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538004741 metal-binding site 1538004742 active site 1538004743 I-site; other site 1538004744 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 1538004745 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1538004746 dimanganese center; other site 1538004747 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1538004748 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein...; Region: SSP411; cd02955 1538004749 catalytic residues; other site 1538004750 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 1538004751 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004752 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004753 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004754 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538004755 Cache domain; Region: Cache_1; pfam02743 1538004756 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538004757 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538004758 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538004759 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]; Region: COG2108 1538004760 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 1538004761 FeS/SAM binding site; other site 1538004762 GH3 auxin-responsive promoter; Region: GH3; cl04006 1538004763 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004764 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004765 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538004766 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 1538004767 active site 1538004768 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1538004769 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538004770 active site 1538004771 phosphorylation site 1538004772 intermolecular recognition site; other site 1538004773 dimerization interface; other site 1538004774 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 1538004775 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 1538004776 CheC-like family; Region: CheC; pfam04509 1538004777 LysE type translocator; Region: LysE; cl00565 1538004778 Cache domain; Region: Cache_1; pfam02743 1538004779 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538004780 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538004781 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538004782 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004783 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1538004784 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1538004785 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538004786 Walker A/P-loop; other site 1538004787 ATP binding site; other site 1538004788 Q-loop/lid; other site 1538004789 ABC transporter signature motif; other site 1538004790 Walker B; other site 1538004791 D-loop; other site 1538004792 H-loop/switch region; other site 1538004793 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1538004794 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1538004795 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 1538004796 Walker A/P-loop; other site 1538004797 ATP binding site; other site 1538004798 Q-loop/lid; other site 1538004799 ABC transporter signature motif; other site 1538004800 Walker B; other site 1538004801 D-loop; other site 1538004802 H-loop/switch region; other site 1538004803 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004804 Peptidase family M48; Region: Peptidase_M48; cl12018 1538004805 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1538004806 VanW like protein; Region: VanW; pfam04294 1538004807 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 1538004808 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 1538004809 S-adenosylmethionine binding site; other site 1538004810 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1538004811 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 1538004812 active site 1538004813 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1538004814 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1538004815 putative metal binding site; other site 1538004816 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 1538004817 binding surface 1538004818 TPR motif; other site 1538004819 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538004820 Walker A/P-loop; other site 1538004821 ATP binding site; other site 1538004822 Q-loop/lid; other site 1538004823 VanW like protein; Region: VanW; pfam04294 1538004824 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1538004825 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 1538004826 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 1538004827 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1538004828 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1538004829 Predicted membrane protein [Function unknown]; Region: COG4684 1538004830 oligoendopeptidase F; Region: pepF; TIGR00181 1538004831 Oligopeptidase F; Region: Peptidase_M3_N; pfam08439 1538004832 Peptidase family M3B Oligopeptidase F (PepF; Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and includes oligoendopeptidase F from Lactococcus lactis. This enzyme hydrolyzes peptides containing between 7 and 17 amino acids with fairly broad...; Region: M3B_Oligoendopeptidase_F; cd06459 1538004833 active site 1538004834 zinc binding site; other site 1538004835 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 1538004836 ATP binding site; other site 1538004837 putative Mg++ binding site; other site 1538004838 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 1538004839 nucleotide binding region; other site 1538004840 ATP-binding site; other site 1538004841 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 1538004842 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1538004843 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538004844 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 1538004845 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1538004846 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 1538004847 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1538004848 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1538004849 B12 binding site; other site 1538004850 cobalt ligand; other site 1538004851 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1538004852 MtaA_CmuA_like family. MtaA/CmuA, also MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M isozymes, are methylcobamide:Coenzyme M methyltransferases, which play a role in metabolic pathways of methane formation from various substrates, such as...; Region: Mta_CmuA_like; cd03307 1538004853 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 1538004854 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1538004855 catalytic loop; other site 1538004856 iron binding site; other site 1538004857 DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved...; Region: DEDDh; cd06127 1538004858 active site 1538004859 substrate binding site; other site 1538004860 catalytic site; other site 1538004861 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1538004862 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1538004863 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 1538004864 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 1538004865 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 1538004866 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1538004867 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1538004868 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 1538004869 putative transposase OrfB; Reviewed; Region: PHA02517 1538004870 Integrase core domain; Region: rve; cl01316 1538004871 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1538004872 Sodium:solute symporter family; Region: SSF; cl00456 1538004873 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 1538004874 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and...; Region: Bact_CD; cd01293 1538004875 active site 1538004876 TOBE domain; Region: TOBE_2; cl01440 1538004877 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538004878 OsmC-like protein; Region: OsmC; cl00767 1538004879 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1538004880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538004881 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538004882 peptidase T; Region: peptidase-T; TIGR01882 1538004883 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1538004884 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1538004885 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...; Region: LuxR_C_like; cd06170 1538004886 DNA binding residues 1538004887 dimerization interface; other site 1538004888 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538004889 peptidase T; Region: peptidase-T; TIGR01882 1538004890 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538004891 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538004892 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1538004893 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1538004894 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 1538004895 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1538004896 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538004897 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538004898 Membrane transport protein; Region: Mem_trans; cl09117 1538004899 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 1538004900 non-specific DNA binding site; other site 1538004901 salt bridge; other site 1538004902 sequence-specific DNA binding site; other site 1538004903 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1538004904 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538004905 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1538004906 metal binding site 2; metal-binding site 1538004907 putative DNA binding helix; other site 1538004908 metal binding site 1; metal-binding site 1538004909 dimer interface; other site 1538004910 structural Zn2+ binding site; other site 1538004911 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1538004912 hypothetical protein; Provisional; Region: PRK10281 1538004913 EamA-like transporter family; Region: EamA; cl01037 1538004914 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1538004915 EamA-like transporter family; Region: EamA; cl01037 1538004916 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 1538004917 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538004918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538004919 active site 1538004920 phosphorylation site 1538004921 intermolecular recognition site; other site 1538004922 dimerization interface; other site 1538004923 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...; Region: trans_reg_C; cd00383 1538004924 DNA binding site 1538004925 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1538004926 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538004927 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 trans-...; Region: HisKA; cd00082 1538004928 dimer interface; other site 1538004929 phosphorylation site 1538004930 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538004931 ATP binding site; other site 1538004932 Mg2+ binding site; other site 1538004933 G-X-G motif; other site 1538004934 Flavin Reductases; Region: FlaRed; cl00801 1538004935 Rubredoxin [Energy production and conversion]; Region: COG1773 1538004936 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...; Region: rubredoxin; cd00730 1538004937 iron binding site; other site 1538004938 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1538004939 Ferritin-like domain; Region: Ferritin; pfam00210 1538004940 ferroxidase diiron center; other site 1538004941 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 1538004942 DNA binding site 1538004943 RNA-binding motif; other site 1538004944 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1538004945 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1538004946 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1538004947 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 1538004948 putative NADH binding site; other site 1538004949 putative active site; other site 1538004950 nudix motif; other site 1538004951 putative metal binding site; other site 1538004952 Coat F domain; Region: Coat_F; cl02368 1538004953 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1538004954 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1538004955 NAD binding site; other site 1538004956 catalytic Zn binding site; other site 1538004957 structural Zn binding site; other site 1538004958 Coat F domain; Region: Coat_F; cl02368 1538004959 Coat F domain; Region: Coat_F; cl02368 1538004960 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538004961 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 1538004962 DNA binding site 1538004963 RNA-binding motif; other site 1538004964 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 1538004965 pyridoxal 5'-phosphate binding site; other site 1538004966 homodimer interface; other site 1538004967 catalytic residue; other site 1538004968 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 1538004969 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538004970 DNA binding site 1538004971 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 1538004972 pyridoxal 5'-phosphate binding site; other site 1538004973 homodimer interface; other site 1538004974 catalytic residue; other site 1538004975 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 1538004976 active site 1538004977 putative substrate binding region; other site 1538004978 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1538004979 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538004980 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 trans-...; Region: HisKA; cd00082 1538004981 dimer interface; other site 1538004982 phosphorylation site 1538004983 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538004984 ATP binding site; other site 1538004985 Mg2+ binding site; other site 1538004986 G-X-G motif; other site 1538004987 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538004988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538004989 active site 1538004990 phosphorylation site 1538004991 intermolecular recognition site; other site 1538004992 dimerization interface; other site 1538004993 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...; Region: trans_reg_C; cd00383 1538004994 DNA binding site 1538004995 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1538004996 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538004997 Walker A/P-loop; other site 1538004998 ATP binding site; other site 1538004999 Q-loop/lid; other site 1538005000 ABC transporter signature motif; other site 1538005001 Walker B; other site 1538005002 D-loop; other site 1538005003 H-loop/switch region; other site 1538005004 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1538005005 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1538005006 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 1538005007 Predicted integral membrane protein [Function unknown]; Region: COG0392 1538005008 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1538005009 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1538005010 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 1,2-...; Region: GT1_UGDG_like; cd03817 1538005011 putative ADP-binding pocket; other site 1538005012 Manganese catalase-like protein, ferritin-like diiron-binding domain; Region: Mn_catalase_like; cd07908 1538005013 Ferritin-like domain; Region: Ferritin; pfam00210 1538005014 dinuclear metal binding motif; other site 1538005015 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 1538005016 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1538005017 ligand binding site; other site 1538005018 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1538005019 drug efflux system protein MdtG; Provisional; Region: PRK09874 1538005020 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 1538005021 putative substrate translocation pore; other site 1538005022 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1538005023 FIST N domain; Region: FIST; pfam08495 1538005024 FIST C domain; Region: FIST_C; pfam10442 1538005025 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538005026 active site 1538005027 phosphorylation site 1538005028 intermolecular recognition site; other site 1538005029 dimerization interface; other site 1538005030 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1538005031 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 trans-...; Region: HisKA; cd00082 1538005032 dimer interface; other site 1538005033 phosphorylation site 1538005034 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538005035 ATP binding site; other site 1538005036 Mg2+ binding site; other site 1538005037 G-X-G motif; other site 1538005038 heat shock protein 90; Provisional; Region: PRK05218 1538005039 Histidine kinase-like ATPases; This family includes several ATP-binding 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 1538005040 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538005041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538005042 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538005043 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538005044 dimerization interface; other site 1538005045 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538005046 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538005047 active site 1538005048 phosphorylation site 1538005049 intermolecular recognition site; other site 1538005050 dimerization interface; other site 1538005051 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...; Region: trans_reg_C; cd00383 1538005052 DNA binding site 1538005053 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 connected by an extended linker. The...; Region: HAMP; cd06225 1538005054 dimerization interface; other site 1538005055 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 trans-...; Region: HisKA; cd00082 1538005056 dimer interface; other site 1538005057 phosphorylation site 1538005058 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538005059 ATP binding site; other site 1538005060 Mg2+ binding site; other site 1538005061 G-X-G motif; other site 1538005062 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 1538005063 putative deacylase active site; other site 1538005064 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1538005065 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 1538005066 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 1538005067 active site 1538005068 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1538005069 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1538005070 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1538005071 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1538005072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538005073 DNA binding site 1538005074 FCD domain; Region: FCD; cl11656 1538005075 LemA family; Region: LemA; cl00742 1538005076 Domain of unknown function (DUF477); Region: DUF477; cl01535 1538005077 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 1538005078 DNA binding site 1538005079 Int/Topo IB signature motif; other site 1538005080 active site 1538005081 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1538005082 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1538005083 DNA binding residues 1538005084 putative dimer interface; other site 1538005085 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1538005086 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538005087 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 1538005088 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538005089 ATP binding site; other site 1538005090 Mg2+ binding site; other site 1538005091 G-X-G motif; other site 1538005092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 1538005093 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 1538005094 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1538005095 synthetase active site; other site 1538005096 NTP binding site; other site 1538005097 metal-binding site 1538005098 Cache domain; Region: Cache_1; pfam02743 1538005099 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538005100 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538005101 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538005102 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 1538005103 short chain dehydrogenase; Provisional; Region: PRK06701 1538005104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538005105 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 1538005106 putative FMN binding site; other site 1538005107 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 1538005108 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1538005109 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H)...; Region: MopB_Formate-Dh-H; cd02753 1538005110 [4Fe-4S] binding site; other site 1538005111 molybdopterin cofactor binding site; other site 1538005112 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H)...; Region: MopB_CT_Formate-Dh_H; cd02790 1538005113 molybdopterin cofactor binding site; other site 1538005114 Ubiquitin-like proteins; Region: UBQ; cl00155 1538005115 charged pocket; other site 1538005116 hydrophobic patch; other site 1538005117 hypothetical protein; Provisional; Region: PRK08328 1538005118 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of...; Region: ThiF_MoeB_HesA_family; cd00757 1538005119 ATP binding site; other site 1538005120 substrate interface; other site 1538005121 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1538005122 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1538005123 Walker A/P-loop; other site 1538005124 ATP binding site; other site 1538005125 Q-loop/lid; other site 1538005126 ABC transporter signature motif; other site 1538005127 Walker B; other site 1538005128 D-loop; other site 1538005129 H-loop/switch region; other site 1538005130 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...; Region: TM_ABC_iron-siderophores_like; cd06550 1538005131 ABC-ATPase subunit interface; other site 1538005132 dimer interface; other site 1538005133 putative PBP binding regions; other site 1538005134 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 1538005135 putative ligand binding residues; other site 1538005136 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1538005137 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...; Region: TroA-like; cl00262 1538005138 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 1538005139 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 1538005140 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 1538005141 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 1538005142 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...; Region: AAA; cd00009 1538005143 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1538005144 Walker A motif; other site 1538005145 ATP binding site; other site 1538005146 Walker B motif; other site 1538005147 arginine finger; other site 1538005148 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538005149 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1538005150 GAF domain; Region: GAF; cl00853 1538005151 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 1538005152 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...; Region: AAA; cd00009 1538005153 Walker A motif; other site 1538005154 ATP binding site; other site 1538005155 Walker B motif; other site 1538005156 arginine finger; other site 1538005157 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538005158 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538005159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538005160 dimer interface; other site 1538005161 conserved gate region; other site 1538005162 putative PBP binding loops; other site 1538005163 ABC-ATPase subunit interface; other site 1538005164 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1538005165 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538005166 Walker A/P-loop; other site 1538005167 ATP binding site; other site 1538005168 Q-loop/lid; other site 1538005169 ABC transporter signature motif; other site 1538005170 Walker B; other site 1538005171 D-loop; other site 1538005172 H-loop/switch region; other site 1538005173 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1538005174 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1538005175 dimer interface; other site 1538005176 putative functional site; other site 1538005177 putative MPT binding site; other site 1538005178 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 1538005179 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1538005180 dimer interface; other site 1538005181 putative functional site; other site 1538005182 putative MPT binding site; other site 1538005183 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538005184 MOSC domain; Region: MOSC; pfam03473 1538005185 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 1538005186 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...; Region: AAA; cd00009 1538005187 Walker A motif; other site 1538005188 ATP binding site; other site 1538005189 Walker B motif; other site 1538005190 arginine finger; other site 1538005191 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538005192 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 1538005193 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 1538005194 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 1538005195 Ubiquitin-like proteins; Region: UBQ; cl00155 1538005196 charged pocket; other site 1538005197 hydrophobic patch; other site 1538005198 hypothetical protein; Provisional; Region: PRK08328 1538005199 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of...; Region: ThiF_MoeB_HesA_family; cd00757 1538005200 ATP binding site; other site 1538005201 substrate interface; other site 1538005202 GAF domain; Region: GAF; cl00853 1538005203 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1538005204 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...; Region: AAA; cd00009 1538005205 Walker A motif; other site 1538005206 ATP binding site; other site 1538005207 Walker B motif; other site 1538005208 arginine finger; other site 1538005209 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538005210 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1538005211 EamA-like transporter family; Region: EamA; cl01037 1538005212 EamA-like transporter family; Region: EamA; cl01037 1538005213 AP endonuclease family 2; Region: AP2Ec; smart00518 1538005214 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 D-arabino-6-...; Region: AP2Ec; cd00019 1538005215 AP (apurinic/apyrimidinic) site pocket; other site 1538005216 DNA interaction; other site 1538005217 Metal-binding active site; metal-binding site 1538005218 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 1538005219 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 1538005220 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1538005221 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 1538005222 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 1538005223 ferredoxin; Validated; Region: PRK07118 1538005224 4Fe-4S binding domain; Region: Fer4; pfam00037 1538005225 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1538005226 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 1538005227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5298 1538005228 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1538005229 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1538005230 active site 1538005231 metal-binding site 1538005232 DNA binding site 1538005233 Type 5 capsule protein repressor C terminal; Region: SbcD_C; pfam12320 1538005234 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1538005235 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 1538005236 Walker A/P-loop; other site 1538005237 ATP binding site; other site 1538005238 Q-loop/lid; other site 1538005239 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1538005240 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 1538005241 ABC transporter signature motif; other site 1538005242 Walker B; other site 1538005243 D-loop; other site 1538005244 H-loop/switch region; other site 1538005245 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1538005246 Ligand binding site; other site 1538005247 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1538005248 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1538005249 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1538005250 FAD binding domain; Region: FAD_binding_4; cl10516 1538005251 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1538005252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538005253 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 1538005254 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1538005255 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 1538005256 4Fe-4S binding domain; Region: Fer4; pfam00037 1538005257 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1538005258 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538005259 Membrane transport protein; Region: Mem_trans; cl09117 1538005260 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1538005261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538005262 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1538005263 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1538005264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538005265 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1538005266 Dehydratase family; Region: ILVD_EDD; cl00340 1538005267 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 1538005268 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 1538005269 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1538005270 PYR/PP interface; other site 1538005271 dimer interface; other site 1538005272 TPP binding site; other site 1538005273 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1538005274 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 1538005275 TPP-binding site; other site 1538005276 dimer interface; other site 1538005277 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1538005278 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1538005279 putative valine binding site; other site 1538005280 dimer interface; other site 1538005281 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1538005282 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 1538005283 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1538005284 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 1538005285 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1538005286 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG1102 1538005287 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1538005288 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1538005289 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1538005290 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 1538005291 inhibitor-cofactor binding pocket; inhibition site 1538005292 pyridoxal 5'-phosphate binding site; other site 1538005293 catalytic residue; other site 1538005294 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1538005295 Allophanate hydrolase subunit 1; Region: AHS1; cl00896 1538005296 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 1538005297 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 1538005298 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 1538005299 carboxyltransferase (CT) interaction site; other site 1538005300 biotinylation site; other site 1538005301 LamB/YcsF family; Region: LamB_YcsF; cl00664 1538005302 Sodium:solute symporter family; Region: SSF; cl00456 1538005303 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 1538005304 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1538005305 putative transporter; Provisional; Region: PRK11462 1538005306 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1538005307 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 1538005308 B12 binding site; other site 1538005309 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 1538005310 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 1538005311 2-O-a-mannosyl-D-glycerate specific PTS transporten components IIABC; Provisional; Region: PRK09765 1538005312 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 1538005313 active site 1538005314 phosphorylation site 1538005315 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 1538005316 P-loop; other site 1538005317 active site 1538005318 phosphorylation site 1538005319 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 1538005320 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1538005321 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 1538005322 putative substrate binding site; other site 1538005323 putative ATP binding site; other site 1538005324 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1538005325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538005326 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1538005327 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1538005328 substrate binding pocket; other site 1538005329 dimer interface; other site 1538005330 inhibitor binding site; inhibition site 1538005331 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 1538005332 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538005333 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 1538005334 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1538005335 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 1538005336 B12 binding site; other site 1538005337 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 1538005338 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1538005339 substrate binding pocket; other site 1538005340 dimer interface; other site 1538005341 inhibitor binding site; inhibition site 1538005342 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1538005343 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 1538005344 B12 binding site; other site 1538005345 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 1538005346 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 1538005347 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1538005348 catalytic loop; other site 1538005349 iron binding site; other site 1538005350 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1538005351 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 1538005352 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 1538005353 B12 binding site; other site 1538005354 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1538005355 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1538005356 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1538005357 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1538005358 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538005359 active site 1538005360 phosphorylation site 1538005361 intermolecular recognition site; other site 1538005362 dimerization interface; other site 1538005363 YcbB domain; Region: YcbB; pfam08664 1538005364 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1538005365 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538005366 ATP binding site; other site 1538005367 G-X-G motif; other site 1538005368 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1538005369 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538005370 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1538005371 ROK family; Region: ROK; cl09121 1538005372 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1538005373 active site 1538005374 nucleophile elbow; other site 1538005375 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1538005376 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1538005377 active site 1538005378 HIGH motif; other site 1538005379 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1538005380 KMSKS motif; other site 1538005381 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1538005382 tRNA binding surface; other site 1538005383 anticodon binding site; other site 1538005384 Ion channel; Region: Ion_trans_2; cl11596 1538005385 HutD; Region: HutD; cl01532 1538005386 CHASE4 domain; Region: CHASE4; cl01308 1538005387 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538005388 metal-binding site 1538005389 active site 1538005390 I-site; other site 1538005391 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1538005392 Zn2+ binding site; other site 1538005393 Mg2+ binding site; other site 1538005394 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 1538005395 Protein of unknown function (DUF421); Region: DUF421; cl00990 1538005396 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 1538005397 SpoVA protein; Region: SpoVA; cl04298 1538005398 SpoVA protein; Region: SpoVA; cl04298 1538005399 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 1538005400 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1538005401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538005402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538005403 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 1538005404 ROK family; Region: ROK; cl09121 1538005405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1538005406 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl12083 1538005407 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl12083 1538005408 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1538005409 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 1538005410 DNA binding site 1538005411 Int/Topo IB signature motif; other site 1538005412 active site 1538005413 LexA repressor; Validated; Region: PRK00215 1538005414 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538005415 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 (...; Region: S24_LexA-like; cd06529 1538005416 Catalytic site; other site 1538005417 DNA polymerase IV; Reviewed; Region: PRK03103 1538005418 DNA Polymerase IV/Kappa; Region: Pol_IV_kappa; cd03586 1538005419 active site 1538005420 DNA binding site 1538005421 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1538005422 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538005423 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1538005424 MtaA_CmuA_like family. MtaA/CmuA, also MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M isozymes, are methylcobamide:Coenzyme M methyltransferases, which play a role in metabolic pathways of methane formation from various substrates, such as...; Region: Mta_CmuA_like; cd03307 1538005425 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1538005426 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 1538005427 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 1538005428 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1538005429 B12 binding site; other site 1538005430 cobalt ligand; other site 1538005431 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1538005432 N subunit; Region: benz_CoA_bzdN; cl11464 1538005433 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1538005434 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1538005435 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 1538005436 benzoate transport; Region: 2A0115; TIGR00895 1538005437 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 1538005438 putative substrate translocation pore; other site 1538005439 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 1538005440 benzoate transport; Region: 2A0115; TIGR00895 1538005441 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 1538005442 putative substrate translocation pore; other site 1538005443 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 1538005444 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1538005445 putative deacylase active site; other site 1538005446 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 1538005447 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1538005448 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as...; Region: OYE_like_FMN_family; cd02803 1538005449 active site 1538005450 FMN binding site; other site 1538005451 substrate binding site; other site 1538005452 putative catalytic residue; other site 1538005453 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1538005454 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 1538005455 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 1538005456 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 1538005457 Sm1 motif; other site 1538005458 intra - hexamer interaction site; other site 1538005459 inter - hexamer interaction site; other site 1538005460 nucleotide binding pocket; other site 1538005461 Sm2 motif; other site 1538005462 IPP transferase; Region: IPPT; cl00403 1538005463 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1538005464 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1538005465 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 1538005466 ATP binding site; other site 1538005467 MutL C terminal dimerization domain; Region: MutL_C; cl07336 1538005468 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1538005469 MutS domain I; Region: MutS_I; pfam01624 1538005470 MutS domain II; Region: MutS_II; pfam05188 1538005471 MutS domain III; Region: MutS_III; cl04977 1538005472 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 1538005473 Walker A/P-loop; other site 1538005474 ATP binding site; other site 1538005475 Q-loop/lid; other site 1538005476 ABC transporter signature motif; other site 1538005477 Walker B; other site 1538005478 D-loop; other site 1538005479 H-loop/switch region; other site 1538005480 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 1538005481 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1538005482 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 1538005483 FeS/SAM binding site; other site 1538005484 TRAM domain; Region: TRAM; cl01282 1538005485 aspartate aminotransferase; Provisional; Region: PRK07681 1538005486 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 1538005487 pyridoxal 5'-phosphate binding site; other site 1538005488 homodimer interface; other site 1538005489 catalytic residue; other site 1538005490 aspartate aminotransferase; Provisional; Region: PRK06836 1538005491 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 1538005492 pyridoxal 5'-phosphate binding site; other site 1538005493 homodimer interface; other site 1538005494 catalytic residue; other site 1538005495 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538005496 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 1538005497 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 1538005498 LytB protein; Region: LYTB; cl00507 1538005499 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 1538005500 RNA binding site; other site 1538005501 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 1538005502 RNA binding site; other site 1538005503 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 1538005504 RNA binding site; other site 1538005505 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 1538005506 RNA binding site; other site 1538005507 domain interface; other site 1538005508 cytidylate kinase; Provisional; Region: cmk; PRK00023 1538005509 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 1538005510 CMP-binding site; other site 1538005511 The sites determining sugar specificity; other site 1538005512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538005513 flavoprotein, HI0933 family; Region: TIGR00275 1538005514 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1538005515 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...; Region: SIS_RpiR; cd05013 1538005516 putative active site; other site 1538005517 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1538005518 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 1538005519 active site 1538005520 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1538005521 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1538005522 DXD motif; other site 1538005523 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 1538005524 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 1538005525 CPxP motif; other site 1538005526 DsrE/DsrF-like family; Region: DrsE; cl00672 1538005527 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1538005528 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1538005529 putative active site; other site 1538005530 catalytic triad; other site 1538005531 dimer interface; other site 1538005532 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1538005533 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-...; Region: YgdL_like; cd00755 1538005534 putative ATP binding site; other site 1538005535 putative substrate interface; other site 1538005536 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1538005537 GTP binding site; other site 1538005538 Arginase family; Region: Arginase; cl00306 1538005539 Cache domain; Region: Cache_1; pfam02743 1538005540 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 connected by an extended linker. The...; Region: HAMP; cd06225 1538005541 dimerization interface; other site 1538005542 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538005543 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538005544 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 1538005545 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538005546 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538005547 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 1538005548 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1538005549 active sites 1538005550 tetramer interface; other site 1538005551 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1538005552 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria...; Region: Imidazolone-5PH; cd01296 1538005553 active site 1538005554 urocanate hydratase; Provisional; Region: PRK05414 1538005555 urocanate hydratase; Region: hutU; TIGR01228 1538005556 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 1538005557 Predicted ATPase [General function prediction only]; Region: COG3899 1538005558 glutamate formiminotransferase; Region: FtcD; TIGR02024 1538005559 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 1538005560 Formiminotransferase domain; Region: FTCD; pfam02971 1538005561 acetylornithine aminotransferase; Provisional; Region: PRK02627 1538005562 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 1538005563 inhibitor-cofactor binding pocket; inhibition site 1538005564 pyridoxal 5'-phosphate binding site; other site 1538005565 catalytic residue; other site 1538005566 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...; Region: AAK_NAGK-C; cd04250 1538005567 feedback inhibition sensing region; other site 1538005568 homohexameric interface; other site 1538005569 nucleotide binding site; other site 1538005570 N-acetyl-L-glutamate binding site; other site 1538005571 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...; Region: OAT; cd02152 1538005572 heterotetramer interface; other site 1538005573 active site pocket 1538005574 cleavage site 1538005575 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1538005576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538005577 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 1538005578 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1538005579 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1538005580 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 1538005581 ATP binding site; other site 1538005582 putative Mg++ binding site; other site 1538005583 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1538005584 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 1538005585 nucleotide binding region; other site 1538005586 ATP-binding site; other site 1538005587 Uncharacterized conserved protein [Function unknown]; Region: COG3945 1538005588 FAD binding domain; Region: FAD_binding_4; cl10516 1538005589 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1538005590 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1538005591 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1538005592 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1538005593 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1538005594 Ligand binding site; other site 1538005595 Uncharacterized conserved protein [Function unknown]; Region: COG3875 1538005596 Uncharacterized conserved protein (DUF2088); Region: DUF2088; pfam09861 1538005597 L-lactate permease; Provisional; Region: PRK10420 1538005598 L-lactate permease; Region: Lactate_perm; cl00701 1538005599 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1538005600 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538005601 DNA binding site 1538005602 FCD domain; Region: FCD; cl11656 1538005603 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1538005604 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 1538005605 motif II; other site 1538005606 FeoA domain; Region: FeoA; cl00838 1538005607 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1538005608 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 1538005609 G1 box; other site 1538005610 GTP/Mg2+ binding site; other site 1538005611 Switch I region; other site 1538005612 G2 box; other site 1538005613 G3 box; other site 1538005614 Switch II region; other site 1538005615 G4 box; other site 1538005616 G5 box; other site 1538005617 Nucleoside recognition; Region: Gate; cl00486 1538005618 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1538005619 Nucleoside recognition; Region: Gate; cl00486 1538005620 FOG: CBS domain [General function prediction only]; Region: COG0517 1538005621 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-...; Region: CBS_pair; cd02205 1538005622 The DnaQ-like exonuclease superfamily is a structurally conserved group of 3'-5' exonucleases, which catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. It is also called the DEDD superfamily, after the...; Region: DnaQ_like_exo; cl10012 1538005623 active site 1538005624 substrate binding site; other site 1538005625 catalytic site; other site 1538005626 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1538005627 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1538005628 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1538005629 active site 1538005630 HIGH motif; other site 1538005631 KMSK motif region; other site 1538005632 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1538005633 tRNA binding surface; other site 1538005634 anticodon binding site; other site 1538005635 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1538005636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538005637 D-glutamate deacylase; Validated; Region: PRK09061 1538005638 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...; Region: metallo-dependent_hydrolases; cl00281 1538005639 active site 1538005640 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...; Region: metallo-dependent_hydrolases; cl00281 1538005641 potential frameshift: common BLAST hit: gi|153936910|ref|YP_001386501.1| putative spermidine/putrescine ABC transporter, permease 1538005642 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1538005643 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538005644 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538005645 dimer interface; other site 1538005646 conserved gate region; other site 1538005647 putative PBP binding loops; other site 1538005648 ABC-ATPase subunit interface; other site 1538005649 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538005650 dimer interface; other site 1538005651 conserved gate region; other site 1538005652 putative PBP binding loops; other site 1538005653 ABC-ATPase subunit interface; other site 1538005654 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1538005655 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues...; Region: ABC_PotA_N; cd03300 1538005656 Walker A/P-loop; other site 1538005657 ATP binding site; other site 1538005658 Q-loop/lid; other site 1538005659 ABC transporter signature motif; other site 1538005660 Walker B; other site 1538005661 D-loop; other site 1538005662 H-loop/switch region; other site 1538005663 TOBE domain; Region: TOBE_2; cl01440 1538005664 Predicted membrane protein [Function unknown]; Region: COG3428 1538005665 Bacterial membrane flanked domain; Region: DUF304; cl01348 1538005666 Bacterial membrane flanked domain; Region: DUF304; cl01348 1538005667 Bacterial membrane flanked domain; Region: DUF304; cl01348 1538005668 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 1538005669 dimerization interface; other site 1538005670 putative DNA binding site; other site 1538005671 putative Zn2+ binding site; other site 1538005672 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1538005673 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 1538005674 active site 1538005675 catalytic site; other site 1538005676 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538005677 Amino acid permease; Region: AA_permease; pfam00324 1538005678 MutS domain III; Region: MutS_III; cl04977 1538005679 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 1538005680 MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-...; Region: ABC_MutS-like; cd03283 1538005681 Walker A/P-loop; other site 1538005682 ATP binding site; other site 1538005683 Q-loop/lid; other site 1538005684 ABC transporter signature motif; other site 1538005685 Walker B; other site 1538005686 D-loop; other site 1538005687 H-loop/switch region; other site 1538005688 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 1538005689 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 1538005690 octamerization interface; other site 1538005691 diferric-oxygen binding site; other site 1538005692 Membrane protein of unknown function; Region: DUF360; cl00850 1538005693 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1538005694 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1538005695 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 1538005696 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538005697 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 1538005698 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 1538005699 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1538005700 DRTGG domain; Region: DRTGG; cl12147 1538005701 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-...; Region: HprK_C; cd01918 1538005702 Hpr binding site; other site 1538005703 active site 1538005704 homohexamer subunit interaction site; other site 1538005705 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 1538005706 Arginase family; Region: Arginase; cl00306 1538005707 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1538005708 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538005709 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538005710 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1538005711 UvrD/REP helicase; Region: UvrD-helicase; cl14126 1538005712 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(...; Region: Pep_deformylase; cd00487 1538005713 active site 1538005714 catalytic residues; other site 1538005715 metal-binding site 1538005716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538005717 active site 1538005718 phosphorylation site 1538005719 intermolecular recognition site; other site 1538005720 dimerization interface; other site 1538005721 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1538005722 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1538005723 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; cl14056 1538005724 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 1538005725 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1538005726 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 1538005727 diiron binding motif; other site 1538005728 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 1538005729 MatE; Region: MatE; pfam01554 1538005730 6,7-dimethyl-8-ribityllumazine synthase; Region: DMRL_synthase; cl00317 1538005731 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1538005732 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 1538005733 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 1538005734 dimerization interface; other site 1538005735 active site 1538005736 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1538005737 Lumazine binding domain; Region: Lum_binding; pfam00677 1538005738 Lumazine binding domain; Region: Lum_binding; pfam00677 1538005739 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 1538005740 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1538005741 catalytic motif; other site 1538005742 Zn binding site; other site 1538005743 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 1538005744 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 connected by an extended linker. The...; Region: HAMP; cd06225 1538005745 dimerization interface; other site 1538005746 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538005747 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 1538005748 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1538005749 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 1538005750 putative binding surface; other site 1538005751 active site 1538005752 P2 response regulator binding domain; Region: P2; pfam07194 1538005753 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1538005754 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538005755 ATP binding site; other site 1538005756 Mg2+ binding site; other site 1538005757 G-X-G motif; other site 1538005758 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 1538005759 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538005760 active site 1538005761 phosphorylation site 1538005762 intermolecular recognition site; other site 1538005763 dimerization interface; other site 1538005764 TOBE domain; Region: TOBE_2; cl01440 1538005765 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1538005766 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538005767 Walker A/P-loop; other site 1538005768 ATP binding site; other site 1538005769 Q-loop/lid; other site 1538005770 ABC transporter signature motif; other site 1538005771 Walker B; other site 1538005772 D-loop; other site 1538005773 H-loop/switch region; other site 1538005774 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538005775 dimer interface; other site 1538005776 conserved gate region; other site 1538005777 putative PBP binding loops; other site 1538005778 ABC-ATPase subunit interface; other site 1538005779 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538005780 MutS domain III; Region: MutS_III; cl04977 1538005781 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538005782 Walker A/P-loop; other site 1538005783 ATP binding site; other site 1538005784 Q-loop/lid; other site 1538005785 ABC transporter signature motif; other site 1538005786 Walker B; other site 1538005787 D-loop; other site 1538005788 H-loop/switch region; other site 1538005789 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; cl11391 1538005790 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 1538005791 metal-binding site 1538005792 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1538005793 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 1538005794 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 D-arabino-6-...; Region: AP2Ec; cl12060 1538005795 Metal-binding active site; metal-binding site 1538005796 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...; Region: Biotinyl_lipoyl_domains; cl11404 1538005797 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1538005798 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1538005799 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538005800 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538005801 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538005802 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 1538005803 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 1538005804 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1538005805 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 1538005806 Walker A/P-loop; other site 1538005807 ATP binding site; other site 1538005808 Q-loop/lid; other site 1538005809 ABC transporter signature motif; other site 1538005810 Walker B; other site 1538005811 D-loop; other site 1538005812 H-loop/switch region; other site 1538005813 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 1538005814 Walker A/P-loop; other site 1538005815 ATP binding site; other site 1538005816 Q-loop/lid; other site 1538005817 ABC transporter signature motif; other site 1538005818 Walker B; other site 1538005819 D-loop; other site 1538005820 H-loop/switch region; other site 1538005821 Cobalt transport protein; Region: CbiQ; cl00463 1538005822 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538005823 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538005824 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538005825 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005826 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005827 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 1538005828 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 1538005829 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005830 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005831 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005832 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005833 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538005834 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538005835 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538005836 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005837 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005838 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1538005839 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005840 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005841 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005842 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005843 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005844 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005845 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538005846 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 1538005847 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538005848 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1538005849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538005850 Walker A/P-loop; other site 1538005851 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1538005852 ATP binding site; other site 1538005853 Q-loop/lid; other site 1538005854 ABC transporter signature motif; other site 1538005855 Walker B; other site 1538005856 D-loop; other site 1538005857 hypothetical protein; Provisional; Region: PRK09898 1538005858 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1538005859 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1538005860 MatE; Region: MatE; pfam01554 1538005861 MatE; Region: MatE; pfam01554 1538005862 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 1538005863 S-adenosylmethionine binding site; other site 1538005864 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1538005865 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 1538005866 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 1538005867 Zn-binding site; other site 1538005868 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 1538005869 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1538005870 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 1538005871 Walker A/P-loop; other site 1538005872 ATP binding site; other site 1538005873 Q-loop/lid; other site 1538005874 ABC transporter signature motif; other site 1538005875 Walker B; other site 1538005876 D-loop; other site 1538005877 H-loop/switch region; other site 1538005878 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1538005879 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 1538005880 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1538005881 Walker A/P-loop; other site 1538005882 ATP binding site; other site 1538005883 Q-loop/lid; other site 1538005884 ABC transporter signature motif; other site 1538005885 Walker B; other site 1538005886 D-loop; other site 1538005887 H-loop/switch region; other site 1538005888 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1538005889 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1538005890 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 1538005891 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538005892 dimer interface; other site 1538005893 conserved gate region; other site 1538005894 putative PBP binding loops; other site 1538005895 ABC-ATPase subunit interface; other site 1538005896 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538005897 dimer interface; other site 1538005898 conserved gate region; other site 1538005899 putative PBP binding loops; other site 1538005900 ABC-ATPase subunit interface; other site 1538005901 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 1538005902 S-adenosylmethionine binding site; other site 1538005903 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1538005904 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 1538005905 Walker A/P-loop; other site 1538005906 ATP binding site; other site 1538005907 Q-loop/lid; other site 1538005908 ABC transporter signature motif; other site 1538005909 Walker B; other site 1538005910 D-loop; other site 1538005911 H-loop/switch region; other site 1538005912 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 1538005913 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1538005914 Walker A/P-loop; other site 1538005915 ATP binding site; other site 1538005916 Q-loop/lid; other site 1538005917 ABC transporter signature motif; other site 1538005918 Walker B; other site 1538005919 D-loop; other site 1538005920 H-loop/switch region; other site 1538005921 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1538005922 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538005923 dimer interface; other site 1538005924 conserved gate region; other site 1538005925 putative PBP binding loops; other site 1538005926 ABC-ATPase subunit interface; other site 1538005927 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538005928 dimer interface; other site 1538005929 conserved gate region; other site 1538005930 putative PBP binding loops; other site 1538005931 ABC-ATPase subunit interface; other site 1538005932 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1538005933 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 1538005934 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1538005935 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...; Region: AAA; cd00009 1538005936 Walker A motif; other site 1538005937 ATP binding site; other site 1538005938 Walker B motif; other site 1538005939 arginine finger; other site 1538005940 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538005941 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 1538005942 S-adenosylmethionine binding site; other site 1538005943 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1538005944 putative transporter; Provisional; Region: PRK11462 1538005945 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538005946 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; cl11420 1538005947 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 1538005948 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1538005949 Thiamine biosynthesis enzyme ThiH and related uncharacterized enzymes [Coenzyme metabolism / General function prediction only]; Region: ThiH; COG1060 1538005950 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; cl14056 1538005951 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538005952 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutL; COG4816 1538005953 Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 1538005954 putative hexamer interface; other site 1538005955 putative hexagonal pore; other site 1538005956 Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 1538005957 putative hexamer interface; other site 1538005958 putative hexagonal pore; other site 1538005959 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1538005960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538005961 domain; Region: Succ_DH_flav_C; pfam02910 1538005962 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1538005963 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1538005964 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538005965 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 1538005966 putative active site; other site 1538005967 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1538005968 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 1538005969 putative active site; other site 1538005970 putative metal binding site; other site 1538005971 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1538005972 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1538005973 dimerization interface; other site 1538005974 Cache domain; Region: Cache_1; pfam02743 1538005975 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538005976 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538005977 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538005978 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 1538005979 active site 1538005980 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 1538005981 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538005982 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 1538005983 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538005984 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538005985 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1538005986 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 1538005987 Walker A/P-loop; other site 1538005988 ATP binding site; other site 1538005989 Q-loop/lid; other site 1538005990 ABC transporter signature motif; other site 1538005991 Walker B; other site 1538005992 D-loop; other site 1538005993 H-loop/switch region; other site 1538005994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200; cl01717 1538005995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200; cl01717 1538005996 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538005997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538005998 active site 1538005999 phosphorylation site 1538006000 intermolecular recognition site; other site 1538006001 dimerization interface; other site 1538006002 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...; Region: trans_reg_C; cd00383 1538006003 DNA binding site 1538006004 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 trans-...; Region: HisKA; cd00082 1538006005 dimer interface; other site 1538006006 phosphorylation site 1538006007 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538006008 ATP binding site; other site 1538006009 Mg2+ binding site; other site 1538006010 G-X-G motif; other site 1538006011 CRISPR-associated protein TM1802 (cas_TM1802); Region: Cas_TM1802; cl09718 1538006012 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 1538006013 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1538006014 active site 1538006015 putative interdomain interaction site; other site 1538006016 putative metal-binding site; other site 1538006017 putative nucleotide binding site; other site 1538006018 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...; Region: TOP1Ac; cl11986 1538006019 domain I; other site 1538006020 DNA binding groove 1538006021 phosphate binding site; other site 1538006022 domain II; other site 1538006023 domain III; other site 1538006024 nucleotide binding site; other site 1538006025 catalytic site; other site 1538006026 domain IV; other site 1538006027 DNA topoisomerase III; Validated; Region: PRK08173 1538006028 DNA topoisomerase III; Provisional; Region: PRK07726 1538006029 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1538006030 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 1538006031 ATP binding site; other site 1538006032 Mg++ binding site; other site 1538006033 motif III; other site 1538006034 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 1538006035 nucleotide binding region; other site 1538006036 ATP-binding site; other site 1538006037 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl02358 1538006038 Uncharacterized protein family (UPF0261); Region: UPF0261; cl02262 1538006039 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl02358 1538006040 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 1538006041 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1538006042 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1538006043 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1538006044 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538006045 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; Region: Fer4_NifH; pfam00142 1538006046 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 1538006047 dimerization interface; other site 1538006048 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1538006049 ATP binding site; other site 1538006050 Hydrogenase formation hypA family; Region: HypD; cl12072 1538006051 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1538006052 HupF/HypC family; Region: HupF_HypC; cl00394 1538006053 Acylphosphatase; Region: Acylphosphatase; cl00551 1538006054 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1538006055 HypF finger; Region: zf-HYPF; pfam07503 1538006056 HypF finger; Region: zf-HYPF; pfam07503 1538006057 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 1538006058 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1538006059 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1538006060 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1538006061 Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]; Region: NifH; COG1348 1538006062 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538006063 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1538006064 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 1538006065 non-specific DNA binding site; other site 1538006066 salt bridge; other site 1538006067 sequence-specific DNA binding site; other site 1538006068 Cupin domain; Region: Cupin_2; cl09118 1538006069 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1538006070 Isochorismatase family; Region: Isochorismatase; pfam00857 1538006071 catalytic triad; other site 1538006072 conserved cis-peptide bond; other site 1538006073 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 1538006074 Sodium:solute symporter family; Region: SSF; cl00456 1538006075 putative symporter YidK; Provisional; Region: PRK10484 1538006076 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1538006077 FAD binding domain; Region: FAD_binding_4; cl10516 1538006078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1538006079 3D domain; Region: 3D; cl01439 1538006080 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538006081 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1538006082 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 1538006083 putative NAD(P) binding site; other site 1538006084 catalytic Zn binding site; other site 1538006085 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 1538006086 GAF domain; Region: GAF; cl00853 1538006087 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...; Region: AAA; cd00009 1538006088 Walker A motif; other site 1538006089 ATP binding site; other site 1538006090 Walker B motif; other site 1538006091 arginine finger; other site 1538006092 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538006093 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-...; Region: EriC; cd01031 1538006094 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 1538006095 Cl- selectivity filter; other site 1538006096 Cl- binding residues; other site 1538006097 pore gating glutamate residue; other site 1538006098 dimer interface; other site 1538006099 H+/Cl- coupling transport residue; other site 1538006100 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1538006101 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538006102 Walker A/P-loop; other site 1538006103 ATP binding site; other site 1538006104 Q-loop/lid; other site 1538006105 ABC transporter signature motif; other site 1538006106 Walker B; other site 1538006107 D-loop; other site 1538006108 H-loop/switch region; other site 1538006109 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1538006110 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1538006111 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006112 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1538006113 transcriptional regulator MalT; Provisional; Region: PRK04841 1538006114 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...; Region: LuxR_C_like; cd06170 1538006115 DNA binding residues 1538006116 dimerization interface; other site 1538006117 Vault protein inter-alpha-trypsin; Region: VIT; cl02699 1538006118 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 1538006119 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 1538006120 metal ion-dependent adhesion site (MIDAS); other site 1538006121 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1810 1538006122 CrcB-like protein; Region: CRCB; cl09114 1538006123 CrcB-like protein; Region: CRCB; cl09114 1538006124 potential frameshift: common BLAST hit: gi|295706054|ref|YP_003599129.1| putative rhizopine catabolism regulatory protein mocR 1538006125 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 1538006126 pyridoxal 5'-phosphate binding site; other site 1538006127 homodimer interface; other site 1538006128 catalytic residue; other site 1538006129 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 1538006130 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1538006131 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 1538006132 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 1538006133 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1538006134 pyridoxal 5'-phosphate binding pocket; other site 1538006135 catalytic residue; other site 1538006136 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 1538006137 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1538006138 PYR/PP interface; other site 1538006139 dimer interface; other site 1538006140 TPP binding site; other site 1538006141 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1538006142 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 1538006143 TPP-binding site; other site 1538006144 dimer interface; other site 1538006145 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538006146 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538006147 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538006148 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538006149 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1538006150 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1538006151 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1538006152 dimer interface; other site 1538006153 active site 1538006154 metal-binding site 1538006155 DNA topoisomerase III; Provisional; Region: PRK08620 1538006156 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1538006157 active site 1538006158 putative interdomain interaction site; other site 1538006159 putative metal-binding site; other site 1538006160 putative nucleotide binding site; other site 1538006161 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...; Region: TOP1Ac; cd00186 1538006162 domain I; other site 1538006163 DNA binding groove 1538006164 phosphate binding site; other site 1538006165 domain II; other site 1538006166 domain III; other site 1538006167 nucleotide binding site; other site 1538006168 catalytic site; other site 1538006169 domain IV; other site 1538006170 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 1538006171 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; cl12011 1538006172 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; cl12011 1538006173 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 1538006174 Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfN_like; cd01971 1538006175 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1538006176 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1538006177 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1538006178 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 1538006179 nitrogenase iron protein; Region: nifH; TIGR01287 1538006180 Nucleotide-binding sites; other site 1538006181 Walker A motif; other site 1538006182 Switch I region of nucleotide binding site; other site 1538006183 Fe4S4 binding sites; other site 1538006184 Switch II region of nucleotide binding site; other site 1538006185 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 1538006186 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; cl14056 1538006187 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 1538006188 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1538006189 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1538006190 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1538006191 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1538006192 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538006193 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1538006194 carbamate kinase; Reviewed; Region: PRK12686 1538006195 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1538006196 putative substrate binding site; other site 1538006197 nucleotide binding site; other site 1538006198 nucleotide binding site; other site 1538006199 homodimer interface; other site 1538006200 Permease family; Region: Xan_ur_permease; cl00967 1538006201 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1538006202 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 1538006203 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1538006204 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1538006205 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1538006206 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1538006207 FAD binding domain; Region: FAD_binding_4; cl10516 1538006208 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1538006209 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 1538006210 DUF35 OB-fold domain; Region: DUF35; pfam01796 1538006211 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 1538006212 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 3-ketacyl-; Region: SCP-x_thiolase; cd00829 1538006213 active site 1538006214 Putative cyclase; Region: Cyclase; cl00814 1538006215 membrane protein FdrA; Validated; Region: PRK06091 1538006216 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 1538006217 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 1538006218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538006219 CoA-ligase; Region: Ligase_CoA; pfam00549 1538006220 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 1538006221 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1538006222 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1538006223 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1538006224 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1538006225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538006226 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1538006227 NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored...; Region: MopB_Nitrate-R-NapA-like; cd02754 1538006228 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1538006229 [4Fe-4S] binding site; other site 1538006230 molybdopterin cofactor binding site; other site 1538006231 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-; Region: MopB_CT; cl09929 1538006232 molybdopterin cofactor binding site; other site 1538006233 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 1538006234 putative substrate translocation pore; other site 1538006235 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 1538006236 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1538006237 4Fe-4S binding domain; Region: Fer4; pfam00037 1538006238 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 1538006239 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 1538006240 FAD binding pocket; other site 1538006241 FAD binding motif; other site 1538006242 phosphate binding motif; other site 1538006243 beta-alpha-beta structure motif; other site 1538006244 NAD binding pocket; other site 1538006245 Iron coordination center; other site 1538006246 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 1538006247 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1538006248 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 1538006249 ligand binding site; other site 1538006250 flexible hinge region; other site 1538006251 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006252 phenylhydantoinase; Validated; Region: PRK08323 1538006253 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like...; Region: D-HYD; cd01314 1538006254 tetramer interface; other site 1538006255 active site 1538006256 carbamate kinase; Reviewed; Region: PRK12686 1538006257 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1538006258 putative substrate binding site; other site 1538006259 nucleotide binding site; other site 1538006260 nucleotide binding site; other site 1538006261 homodimer interface; other site 1538006262 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538006263 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1538006264 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 1538006265 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1538006266 active site 1538006267 putative substrate binding pocket; other site 1538006268 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 1538006269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538006270 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 1538006271 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1538006272 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1538006273 Permease family; Region: Xan_ur_permease; cl00967 1538006274 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1538006275 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)...; Region: Trp-synth-beta_II; cd00640 1538006276 pyridoxal 5'-phosphate binding pocket; other site 1538006277 catalytic residue; other site 1538006278 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1538006279 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 1538006280 active site 1538006281 putative substrate binding pocket; other site 1538006282 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...; Region: metallo-dependent_hydrolases; cl00281 1538006283 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1538006284 FAD binding domain; Region: FAD_binding_4; cl10516 1538006285 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1538006286 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1538006287 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1538006288 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1538006289 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 1538006290 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1538006291 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 1538006292 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1538006293 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 1538006294 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1538006295 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1538006296 Ligand binding site; other site 1538006297 metal-binding site 1538006298 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006299 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538006300 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538006301 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1538006302 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...; Region: metallo-dependent_hydrolases; cl00281 1538006303 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen...; Region: AdeC; cd01295 1538006304 active site 1538006305 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...; Region: metallo-dependent_hydrolases; cl00281 1538006306 Permease family; Region: Xan_ur_permease; cl00967 1538006307 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 1538006308 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...; Region: metallo-dependent_hydrolases; cl00281 1538006309 active site 1538006310 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1538006311 GAF domain; Region: GAF; cl00853 1538006312 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 1538006313 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...; Region: AAA; cd00009 1538006314 Walker A motif; other site 1538006315 ATP binding site; other site 1538006316 Walker B motif; other site 1538006317 arginine finger; other site 1538006318 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538006319 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 1538006320 catalytic core; other site 1538006321 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1538006322 Ligand binding site; other site 1538006323 metal-binding site 1538006324 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1538006325 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1538006326 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1538006327 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 1538006328 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 1538006329 putative oxidoreductase; Provisional; Region: PRK11749 1538006330 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538006331 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 1538006332 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 alpha-; Region: HCP_like; cl00255 1538006333 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1538006334 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 1538006335 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; cl00159 1538006336 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1538006337 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 1538006338 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1538006339 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1538006340 GAF domain; Region: GAF; cl00853 1538006341 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 1538006342 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...; Region: AAA; cd00009 1538006343 Walker A motif; other site 1538006344 ATP binding site; other site 1538006345 Walker B motif; other site 1538006346 arginine finger; other site 1538006347 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538006348 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1538006349 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1538006350 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 1538006351 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 1538006352 FeS/SAM binding site; other site 1538006353 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 1538006354 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 1538006355 S-adenosylmethionine binding site; other site 1538006356 putative oxidoreductase; Provisional; Region: PRK11749 1538006357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538006358 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 1538006359 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1538006360 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 1538006361 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; cl00159 1538006362 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1538006363 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 1538006364 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1538006365 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1538006366 GAF domain; Region: GAF; cl00853 1538006367 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 1538006368 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...; Region: AAA; cd00009 1538006369 Walker A motif; other site 1538006370 ATP binding site; other site 1538006371 Walker B motif; other site 1538006372 arginine finger; other site 1538006373 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538006374 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 1538006375 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...; Region: GDC-P; cd00613 1538006376 tetramer interface; other site 1538006377 pyridoxal 5'-phosphate binding site; other site 1538006378 catalytic residue; other site 1538006379 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 1538006380 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...; Region: GDC-P; cd00613 1538006381 tetramer interface; other site 1538006382 pyridoxal 5'-phosphate binding site; other site 1538006383 catalytic residue; other site 1538006384 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 L-...; Region: GCS_H; cd06848 1538006385 lipoyl attachment site; other site 1538006386 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1538006387 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1538006388 putative oxidoreductase; Provisional; Region: PRK11749 1538006389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538006390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538006391 hypothetical protein; Provisional; Region: PRK11413 1538006392 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1538006393 substrate binding site; other site 1538006394 ligand binding site; other site 1538006395 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1538006396 substrate binding site; other site 1538006397 PHP domain; Region: PHP; pfam02811 1538006398 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1538006399 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1538006400 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; cl09110 1538006401 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; cl09110 1538006402 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1538006403 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as...; Region: OYE_like_FMN_family; cd02803 1538006404 active site 1538006405 FMN binding site; other site 1538006406 substrate binding site; other site 1538006407 putative catalytic residue; other site 1538006408 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538006409 Putative cyclase; Region: Cyclase; cl00814 1538006410 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 1538006411 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1538006412 putative active site; other site 1538006413 putative metal binding site; other site 1538006414 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006415 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1538006416 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 1538006417 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1538006418 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538006419 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538006420 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1538006421 proposed active site lysine; other site 1538006422 conserved cys residue; other site 1538006423 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538006424 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538006425 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1538006426 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538006427 Amino acid permease; Region: AA_permease; pfam00324 1538006428 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1538006429 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 1538006430 dimer interface; other site 1538006431 pyridoxal 5'-phosphate binding site; other site 1538006432 catalytic residue; other site 1538006433 cystathionine beta-lyase; Provisional; Region: PRK07671 1538006434 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 1538006435 homodimer interface; other site 1538006436 substrate-cofactor binding pocket; other site 1538006437 pyridoxal 5'-phosphate binding site; other site 1538006438 catalytic residue; other site 1538006439 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 1538006440 S-adenosylmethionine binding site; other site 1538006441 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with 5-...; Region: QPRTase; cd01572 1538006442 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 1538006443 dimerization interface; other site 1538006444 active site 1538006445 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 1538006446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538006447 domain; Region: Succ_DH_flav_C; pfam02910 1538006448 Quinolinate synthetase A protein; Region: NadA; cl00420 1538006449 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538006450 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1538006451 serpin-like protein; Provisional; Region: DpV83gp170; PHA02660 1538006452 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which...; Region: SERPIN; cl00137 1538006453 reactive center loop; other site 1538006454 BioY family; Region: BioY; cl00560 1538006455 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 1538006456 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cd00209 1538006457 folate binding site; other site 1538006458 NADP+ binding site; other site 1538006459 Predicted membrane protein [Function unknown]; Region: COG4907 1538006460 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1538006461 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1538006462 FMN-binding domain; Region: FMN_bind; cl01081 1538006463 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 1538006464 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538006465 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 1538006466 S-adenosylmethionine binding site; other site 1538006467 potential frameshift: common BLAST hit: gi|269118847|ref|YP_003307024.1| major facilitator superfamily MFS_1 1538006468 H+ Antiporter protein; Region: 2A0121; TIGR00900 1538006469 H+ Antiporter protein; Region: 2A0121; TIGR00900 1538006470 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 1538006471 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1538006472 active site 1538006473 substrate binding site; other site 1538006474 trimer interface; other site 1538006475 CoA binding site; other site 1538006476 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 1538006477 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 1538006478 S-adenosylmethionine binding site; other site 1538006479 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 1538006480 nudix motif; other site 1538006481 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 1538006482 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 1538006483 nudix motif; other site 1538006484 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 1538006485 Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor...; Region: TetM_like; cd04168 1538006486 G1 box; other site 1538006487 putative GEF interaction site; other site 1538006488 GTP/Mg2+ binding site; other site 1538006489 Switch I region; other site 1538006490 G2 box; other site 1538006491 G3 box; other site 1538006492 Switch II region; other site 1538006493 G4 box; other site 1538006494 G5 box; other site 1538006495 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 1538006496 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 1538006497 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a GTP-...; Region: Tet_C; cd03711 1538006498 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538006499 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538006500 Walker A/P-loop; other site 1538006501 ATP binding site; other site 1538006502 Q-loop/lid; other site 1538006503 ABC transporter signature motif; other site 1538006504 Walker B; other site 1538006505 D-loop; other site 1538006506 H-loop/switch region; other site 1538006507 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1538006508 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538006509 Walker A/P-loop; other site 1538006510 ATP binding site; other site 1538006511 Q-loop/lid; other site 1538006512 ABC transporter signature motif; other site 1538006513 Walker B; other site 1538006514 D-loop; other site 1538006515 H-loop/switch region; other site 1538006516 LytTr DNA-binding domain; Region: LytTR; cl04498 1538006517 Cation efflux family; Region: Cation_efflux; cl00316 1538006518 YibE/F-like protein; Region: YibE_F; cl02259 1538006519 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1538006520 Clp amino terminal domain; Region: Clp_N; pfam02861 1538006521 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...; Region: AAA; cd00009 1538006522 Walker A motif; other site 1538006523 ATP binding site; other site 1538006524 Walker B motif; other site 1538006525 arginine finger; other site 1538006526 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...; Region: AAA; cd00009 1538006527 Walker A motif; other site 1538006528 ATP binding site; other site 1538006529 Walker B motif; other site 1538006530 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1538006531 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 1538006532 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538006533 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538006534 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538006535 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1538006536 Cache domain; Region: Cache_1; pfam02743 1538006537 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538006538 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538006539 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538006540 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1538006541 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 1538006542 putative substrate translocation pore; other site 1538006543 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 1538006544 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006545 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1538006546 GAF domain; Region: GAF; cl00853 1538006547 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 1538006548 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...; Region: AAA; cd00009 1538006549 Walker A motif; other site 1538006550 ATP binding site; other site 1538006551 Walker B motif; other site 1538006552 arginine finger; other site 1538006553 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538006554 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 1538006555 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1538006556 tetramer interface; other site 1538006557 catalytic Zn binding site; other site 1538006558 NADP binding site; other site 1538006559 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1538006560 GAF domain; Region: GAF; cl00853 1538006561 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 1538006562 putative active site; other site 1538006563 heme pocket; other site 1538006564 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...; Region: AAA; cd00009 1538006565 Walker A motif; other site 1538006566 ATP binding site; other site 1538006567 Walker B motif; other site 1538006568 arginine finger; other site 1538006569 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538006570 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1538006571 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 1538006572 putative active site; other site 1538006573 metal-binding site 1538006574 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 1538006575 metal-binding site 1538006576 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 1538006577 metal-binding site 1538006578 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1538006579 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 1538006580 metal-binding site 1538006581 C4-dicarboxylate transporter/malic acid transport protein; Region: C4dic_mal_tran; cl04176 1538006582 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1538006583 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; cl11391 1538006584 Uncharacterized BCR, COG1937; Region: DUF156; cl00846 1538006585 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; cl11391 1538006586 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1538006587 active site 1538006588 motif I; other site 1538006589 motif II; other site 1538006590 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; cl11391 1538006591 Integral membrane protein TerC family; Region: TerC; cl10468 1538006592 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006593 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 1538006594 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 1538006595 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538006596 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 1538006597 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1538006598 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1538006599 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...; Region: PBPb; cd00134 1538006600 substrate binding pocket; other site 1538006601 membrane-bound complex binding site; other site 1538006602 hinge residues; other site 1538006603 Domain of unknown function DUF20; Region: UPF0118; cl00465 1538006604 MOSC domain; Region: MOSC; pfam03473 1538006605 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a...; Region: MoaC_PE; cd01420 1538006606 trimer interface; other site 1538006607 dimer interface; other site 1538006608 putative active site; other site 1538006609 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea...; Region: MogA_MoaB; cd00886 1538006610 MPT binding site; other site 1538006611 trimer interface; other site 1538006612 Sulfatase; Region: Sulfatase; cl10460 1538006613 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538006614 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 trans-...; Region: HisKA; cd00082 1538006615 dimer interface; other site 1538006616 phosphorylation site 1538006617 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538006618 ATP binding site; other site 1538006619 Mg2+ binding site; other site 1538006620 G-X-G motif; other site 1538006621 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538006622 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538006623 active site 1538006624 phosphorylation site 1538006625 intermolecular recognition site; other site 1538006626 dimerization interface; other site 1538006627 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...; Region: trans_reg_C; cd00383 1538006628 DNA binding site 1538006629 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1538006630 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 1538006631 Walker A/P-loop; other site 1538006632 ATP binding site; other site 1538006633 Q-loop/lid; other site 1538006634 ABC transporter signature motif; other site 1538006635 Walker B; other site 1538006636 D-loop; other site 1538006637 H-loop/switch region; other site 1538006638 Predicted transcriptional regulators [Transcription]; Region: COG1725 1538006639 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538006640 DNA binding site 1538006641 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538006642 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538006643 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1538006644 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006645 Peptidase family M48; Region: Peptidase_M48; cl12018 1538006646 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 1538006647 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...; Region: Aldo_ket_red; cd06660 1538006648 active site 1538006649 catalytic tetrad; other site 1538006650 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 alpha-; Region: HCP_like; cl00255 1538006651 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1538006652 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1538006653 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 1538006654 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1538006655 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1538006656 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 1538006657 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 1538006658 substrate binding site; other site 1538006659 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1538006660 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1538006661 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1538006662 catalytic site; other site 1538006663 subunit interface; other site 1538006664 ornithine carbamoyltransferase; Validated; Region: PRK02102 1538006665 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1538006666 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1538006667 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1538006668 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 1538006669 S-adenosylmethionine binding site; other site 1538006670 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1538006671 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 1538006672 ATP binding site; other site 1538006673 putative Mg++ binding site; other site 1538006674 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 1538006675 nucleotide binding region; other site 1538006676 ATP-binding site; other site 1538006677 RQC domain; Region: RQC; pfam09382 1538006678 HRDC domain; Region: HRDC; cl02578 1538006679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 1538006680 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 1538006681 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 1538006682 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1538006683 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; cl09110 1538006684 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; cl09110 1538006685 Citrate lyase, alpha subunit (CitF); Region: CitF; pfam04223 1538006686 Coenzyme A transferase; Region: CoA_trans; cl00773 1538006687 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 1538006688 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 1538006689 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 1538006690 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1538006691 active site 1538006692 nucleotide binding site; other site 1538006693 HIGH motif; other site 1538006694 KMSKS motif; other site 1538006695 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1538006696 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1538006697 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1538006698 putative NAD(P) binding site; other site 1538006699 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 1538006700 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1538006701 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...; Region: PBPb; cl11400 1538006702 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 1538006703 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1538006704 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 1538006705 Walker A/P-loop; other site 1538006706 ATP binding site; other site 1538006707 Q-loop/lid; other site 1538006708 ABC transporter signature motif; other site 1538006709 Walker B; other site 1538006710 D-loop; other site 1538006711 H-loop/switch region; other site 1538006712 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl00527 1538006713 TspO/MBR family; Region: TspO_MBR; cl01379 1538006714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538006715 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006716 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538006717 dimerization interface; other site 1538006718 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate...; Region: MopB_Acetylene-hydratase; cd02759 1538006719 putative [Fe4-S4] binding site; other site 1538006720 putative molybdopterin cofactor binding site; other site 1538006721 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 1538006722 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate...; Region: MopB_CT_Acetylene-hydratase; cd02781 1538006723 putative molybdopterin cofactor binding site; other site 1538006724 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1538006725 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1538006726 chaperone protein TorD; Validated; Region: torD; PRK04976 1538006727 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 1538006728 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 alpha-; Region: HCP_like; cl00255 1538006729 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 1538006730 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 1538006731 FAD binding pocket; other site 1538006732 FAD binding motif; other site 1538006733 phosphate binding motif; other site 1538006734 beta-alpha-beta structure motif; other site 1538006735 NAD binding pocket; other site 1538006736 Iron coordination center; other site 1538006737 Stage II sporulation protein; Region: SpoIID; cl07201 1538006738 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 1538006739 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 1538006740 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1538006741 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1538006742 Prephenate dehydratase; Region: PDT; pfam00800 1538006743 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 1538006744 putative L-Phe binding site; other site 1538006745 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1538006746 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006747 Predicted membrane protein [Function unknown]; Region: COG2364 1538006748 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1538006749 active site 1538006750 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1538006751 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538006752 ATP binding site; other site 1538006753 Mg2+ binding site; other site 1538006754 G-X-G motif; other site 1538006755 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 1538006756 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1538006757 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1538006758 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; cl12031 1538006759 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538006760 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538006761 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1538006762 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1538006763 DNA binding residues 1538006764 putative dimer interface; other site 1538006765 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1538006766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538006767 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006768 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538006769 dimerization interface; other site 1538006770 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1538006771 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538006772 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 trans-...; Region: HisKA; cd00082 1538006773 dimer interface; other site 1538006774 phosphorylation site 1538006775 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538006776 ATP binding site; other site 1538006777 Mg2+ binding site; other site 1538006778 G-X-G motif; other site 1538006779 Erythromycin esterase homolog [General function prediction only]; Region: COG2312 1538006780 Erythromycin esterase; Region: Erythro_esteras; pfam05139 1538006781 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538006782 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1538006783 Walker A/P-loop; other site 1538006784 ATP binding site; other site 1538006785 Q-loop/lid; other site 1538006786 ABC transporter signature motif; other site 1538006787 Walker B; other site 1538006788 D-loop; other site 1538006789 H-loop/switch region; other site 1538006790 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538006791 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538006792 active site 1538006793 phosphorylation site 1538006794 intermolecular recognition site; other site 1538006795 dimerization interface; other site 1538006796 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...; Region: trans_reg_C; cd00383 1538006797 DNA binding site 1538006798 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1538006799 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538006800 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538006801 active site 1538006802 phosphorylation site 1538006803 intermolecular recognition site; other site 1538006804 dimerization interface; other site 1538006805 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...; Region: trans_reg_C; cd00383 1538006806 DNA binding site 1538006807 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 trans-...; Region: HisKA; cl00080 1538006808 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538006809 ATP binding site; other site 1538006810 Mg2+ binding site; other site 1538006811 G-X-G motif; other site 1538006812 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538006813 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538006814 Walker A/P-loop; other site 1538006815 ATP binding site; other site 1538006816 Q-loop/lid; other site 1538006817 ABC transporter signature motif; other site 1538006818 Walker B; other site 1538006819 D-loop; other site 1538006820 H-loop/switch region; other site 1538006821 Predicted permease; Region: FtsX; cl11418 1538006822 Predicted permease; Region: FtsX; cl11418 1538006823 6-phosphofructokinase; Provisional; Region: PRK03202 1538006824 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases...; Region: PFK; cl00204 1538006825 active site 1538006826 ADP/pyrophosphate binding site; other site 1538006827 dimerization interface; other site 1538006828 allosteric effector site; other site 1538006829 fructose-1,6-bisphosphate binding site; other site 1538006830 putative transporter; Provisional; Region: PRK11462 1538006831 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1538006832 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1538006833 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 1538006834 NAD(P) binding site; other site 1538006835 catalytic Zn binding site; other site 1538006836 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1538006837 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 1538006838 PYR/PP interface; other site 1538006839 dimer interface; other site 1538006840 TPP binding site; other site 1538006841 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1538006842 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 1538006843 TPP-binding site; other site 1538006844 dimer interface; other site 1538006845 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1538006846 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 1538006847 NAD(P) binding site; other site 1538006848 catalytic Zn binding site; other site 1538006849 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 1538006850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538006851 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1538006852 putative transporter; Provisional; Region: PRK11462 1538006853 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 1538006854 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1538006855 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538006856 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1538006857 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538006858 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538006859 Walker A/P-loop; other site 1538006860 ATP binding site; other site 1538006861 Q-loop/lid; other site 1538006862 ABC transporter signature motif; other site 1538006863 Walker B; other site 1538006864 D-loop; other site 1538006865 H-loop/switch region; other site 1538006866 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1538006867 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 1538006868 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538006869 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...; Region: Sigma70_r4; cd06171 1538006870 DNA binding residues 1538006871 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 1538006872 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1538006873 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1538006874 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 1538006875 Rubrerythrin [Energy production and conversion]; Region: COG1592 1538006876 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1538006877 binuclear metal center; other site 1538006878 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 ferredoxin-...; Region: rubredoxin_SM; cd00729 1538006879 iron binding site; other site 1538006880 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea, which are member of the MipB/TalC subfamily of class I aldolases. FSA catalyze an aldol cleavage of fructose 6-phosphate and do not utilize fructose, fructose 1-...; Region: Transaldolase_FSA; cd00956 1538006881 active site 1538006882 intersubunit interactions; other site 1538006883 catalytic residue; other site 1538006884 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1538006885 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; cl14056 1538006886 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 1538006887 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1538006888 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 1538006889 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 1538006890 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1538006891 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538006892 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1538006893 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 1538006894 Interdomain contacts; other site 1538006895 Cytokine receptor motif; other site 1538006896 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1538006897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538006898 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 1538006899 P-loop; other site 1538006900 active site 1538006901 phosphorylation site 1538006902 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 1538006903 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 1538006904 active site 1538006905 phosphorylation site 1538006906 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1538006907 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006908 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1538006909 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1538006910 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538006911 metal-binding site 1538006912 active site 1538006913 I-site; other site 1538006914 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 1538006915 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1538006916 active site 1538006917 putative substrate binding pocket; other site 1538006918 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1538006919 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...; Region: metallo-dependent_hydrolases; cl00281 1538006920 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen...; Region: AdeC; cd01295 1538006921 active site 1538006922 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...; Region: metallo-dependent_hydrolases; cl00281 1538006923 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1538006924 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538006925 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1538006926 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538006927 Walker A/P-loop; other site 1538006928 ATP binding site; other site 1538006929 Q-loop/lid; other site 1538006930 ABC transporter signature motif; other site 1538006931 Walker B; other site 1538006932 D-loop; other site 1538006933 H-loop/switch region; other site 1538006934 TOBE domain; Region: TOBE_2; cl01440 1538006935 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538006936 dimer interface; other site 1538006937 conserved gate region; other site 1538006938 putative PBP binding loops; other site 1538006939 ABC-ATPase subunit interface; other site 1538006940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538006941 dimer interface; other site 1538006942 conserved gate region; other site 1538006943 putative PBP binding loops; other site 1538006944 ABC-ATPase subunit interface; other site 1538006945 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 1538006946 pyridoxal 5'-phosphate binding pocket; other site 1538006947 catalytic residue; other site 1538006948 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1538006949 4Fe-4S binding domain; Region: Fer4; pfam00037 1538006950 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1538006951 FMN binding site; other site 1538006952 dimer interface; other site 1538006953 transcriptional regulator BetI; Validated; Region: PRK00767 1538006954 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538006955 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538006956 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1538006957 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006958 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1538006959 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1538006960 DNA binding residues 1538006961 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 1538006962 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1538006963 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1538006964 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538006965 Walker A/P-loop; other site 1538006966 ATP binding site; other site 1538006967 Q-loop/lid; other site 1538006968 ABC transporter signature motif; other site 1538006969 Walker B; other site 1538006970 D-loop; other site 1538006971 H-loop/switch region; other site 1538006972 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1538006973 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1538006974 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 1538006975 Walker A/P-loop; other site 1538006976 ATP binding site; other site 1538006977 Q-loop/lid; other site 1538006978 ABC transporter signature motif; other site 1538006979 Walker B; other site 1538006980 D-loop; other site 1538006981 H-loop/switch region; other site 1538006982 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1538006983 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538006984 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1538006985 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1538006986 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538006987 Walker A/P-loop; other site 1538006988 ATP binding site; other site 1538006989 Q-loop/lid; other site 1538006990 ABC transporter signature motif; other site 1538006991 Walker B; other site 1538006992 D-loop; other site 1538006993 H-loop/switch region; other site 1538006994 TOBE domain; Region: TOBE_2; cl01440 1538006995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538006996 dimer interface; other site 1538006997 conserved gate region; other site 1538006998 putative PBP binding loops; other site 1538006999 ABC-ATPase subunit interface; other site 1538007000 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538007001 dimer interface; other site 1538007002 conserved gate region; other site 1538007003 putative PBP binding loops; other site 1538007004 ABC-ATPase subunit interface; other site 1538007005 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538007006 Sulfatase; Region: Sulfatase; cl10460 1538007007 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 1538007008 catalytic core; other site 1538007009 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 1538007010 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1538007011 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 alpha-; Region: HCP_like; cl00255 1538007012 CGNR zinc finger; Region: zf-CGNR; pfam11706 1538007013 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538007014 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538007015 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 1538007016 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1538007017 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; cl12031 1538007018 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538007019 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1538007020 domain; Region: GreA_GreB_N; pfam03449 1538007021 C-term; Region: GreA_GreB; pfam01272 1538007022 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 1538007023 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 1538007024 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 1538007025 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1538007026 LytTr DNA-binding domain; Region: LytTR; cl04498 1538007027 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; cl09110 1538007028 transmembrane helices; other site 1538007029 Membrane transport protein; Region: Mem_trans; cl09117 1538007030 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1538007031 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538007032 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...; Region: Sigma70_r4; cd06171 1538007033 DNA binding residues 1538007034 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538007035 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538007036 Walker A/P-loop; other site 1538007037 ATP binding site; other site 1538007038 Q-loop/lid; other site 1538007039 ABC transporter signature motif; other site 1538007040 Walker B; other site 1538007041 D-loop; other site 1538007042 H-loop/switch region; other site 1538007043 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 1538007044 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...; Region: PBPb; cl11400 1538007045 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 1538007046 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 1538007047 active site 1538007048 Substrate binding site; other site 1538007049 Mg++ binding site; other site 1538007050 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 1538007051 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1538007052 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 1538007053 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1538007054 dimer interface; other site 1538007055 active site 1538007056 metal-binding site 1538007057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007058 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1538007059 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; cl14056 1538007060 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1538007061 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1538007062 active site 1538007063 ATP binding site; other site 1538007064 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 1538007065 putative substrate translocation pore; other site 1538007066 Protein of unknown function (DUF1016); Region: DUF1016; cl01979 1538007067 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538007068 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 1538007069 biotin--protein ligase; Provisional; Region: PRK11886 1538007070 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538007071 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1538007072 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1538007073 isoaspartyl dipeptidase; Provisional; Region: PRK10657 1538007074 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...; Region: metallo-dependent_hydrolases; cl00281 1538007075 active site 1538007076 Ferredoxin [Energy production and conversion]; Region: COG1146 1538007077 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1538007078 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538007079 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538007080 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 1538007081 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 1538007082 Ligand Binding Site; other site 1538007083 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1538007084 active site 1538007085 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1538007086 dimer interface; other site 1538007087 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 1538007088 Ligand Binding Site; other site 1538007089 Molecular Tunnel; other site 1538007090 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 1538007091 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1538007092 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1538007093 HIGH motif; other site 1538007094 active site 1538007095 nucleotide binding site; other site 1538007096 catalytic core domain of non-descriminating glutamyl-tRNA and glutaminyl-tRNA synthetase; Region: Gln_GluRS_non_core; cd00807 1538007097 KMSKS motif; other site 1538007098 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1538007099 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1538007100 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1538007101 DNA binding residues 1538007102 dimer interface; other site 1538007103 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 1538007104 S-adenosylmethionine binding site; other site 1538007105 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1538007106 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 1538007107 inhibitor-cofactor binding pocket; inhibition site 1538007108 pyridoxal 5'-phosphate binding site; other site 1538007109 catalytic residue; other site 1538007110 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1538007111 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 1538007112 inhibitor-cofactor binding pocket; inhibition site 1538007113 pyridoxal 5'-phosphate binding site; other site 1538007114 catalytic residue; other site 1538007115 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 1538007116 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538007117 metal-binding site 1538007118 active site 1538007119 I-site; other site 1538007120 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 1538007121 Phage integrase family; Region: Phage_integrase; pfam00589 1538007122 DNA binding site 1538007123 Int/Topo IB signature motif; other site 1538007124 active site 1538007125 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1538007126 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1538007127 Coenzyme A binding pocket; other site 1538007128 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538007129 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 1538007130 Walker A/P-loop; other site 1538007131 ATP binding site; other site 1538007132 Q-loop/lid; other site 1538007133 ABC transporter signature motif; other site 1538007134 Walker B; other site 1538007135 D-loop; other site 1538007136 H-loop/switch region; other site 1538007137 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 1538007138 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 1538007139 Protein of unknown function (DUF1847); Region: DUF1847; cl02037 1538007140 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 1538007141 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1538007142 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538007143 Walker A/P-loop; other site 1538007144 ATP binding site; other site 1538007145 Q-loop/lid; other site 1538007146 ABC transporter signature motif; other site 1538007147 Walker B; other site 1538007148 D-loop; other site 1538007149 H-loop/switch region; other site 1538007150 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538007151 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 1538007152 SUA5 domain; Region: SUA5; pfam03481 1538007153 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 1538007154 Domain of unknown function (DUF362); Region: DUF362; cl00879 1538007155 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1538007156 DNA binding residues 1538007157 Protein of unknown function (DUF2935); Region: DUF2935; pfam11155 1538007158 Protein of unknown function (DUF2935); Region: DUF2935; pfam11155 1538007159 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 1538007160 Phage integrase family; Region: Phage_integrase; pfam00589 1538007161 DNA binding site 1538007162 Int/Topo IB signature motif; other site 1538007163 active site 1538007164 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1538007165 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 1538007166 FeS/SAM binding site; other site 1538007167 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538007168 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 trans-...; Region: HisKA; cd00082 1538007169 dimer interface; other site 1538007170 phosphorylation site 1538007171 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538007172 ATP binding site; other site 1538007173 Mg2+ binding site; other site 1538007174 G-X-G motif; other site 1538007175 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538007176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538007177 active site 1538007178 phosphorylation site 1538007179 intermolecular recognition site; other site 1538007180 dimerization interface; other site 1538007181 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...; Region: trans_reg_C; cd00383 1538007182 DNA binding site 1538007183 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1538007184 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538007185 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538007186 Walker A/P-loop; other site 1538007187 ATP binding site; other site 1538007188 Q-loop/lid; other site 1538007189 ABC transporter signature motif; other site 1538007190 Walker B; other site 1538007191 D-loop; other site 1538007192 H-loop/switch region; other site 1538007193 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1538007194 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 D-arabino-6-...; Region: AP2Ec; cl12060 1538007195 Metal-binding active site; metal-binding site 1538007196 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 1538007197 MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-...; Region: ABC_MutS-like; cd03283 1538007198 Walker A/P-loop; other site 1538007199 ATP binding site; other site 1538007200 Q-loop/lid; other site 1538007201 ABC transporter signature motif; other site 1538007202 Walker B; other site 1538007203 D-loop; other site 1538007204 H-loop/switch region; other site 1538007205 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538007206 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1538007207 MatE; Region: MatE; pfam01554 1538007208 MatE; Region: MatE; pfam01554 1538007209 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1538007210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538007211 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538007212 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538007213 Walker A/P-loop; other site 1538007214 ATP binding site; other site 1538007215 Q-loop/lid; other site 1538007216 ABC transporter signature motif; other site 1538007217 Walker B; other site 1538007218 D-loop; other site 1538007219 H-loop/switch region; other site 1538007220 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 1538007221 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 1538007222 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538007223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538007224 active site 1538007225 phosphorylation site 1538007226 intermolecular recognition site; other site 1538007227 dimerization interface; other site 1538007228 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...; Region: trans_reg_C; cd00383 1538007229 DNA binding site 1538007230 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1538007231 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 trans-...; Region: HisKA; cd00082 1538007232 phosphorylation site 1538007233 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538007234 ATP binding site; other site 1538007235 Mg2+ binding site; other site 1538007236 G-X-G motif; other site 1538007237 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538007238 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538007239 Walker A/P-loop; other site 1538007240 ATP binding site; other site 1538007241 Q-loop/lid; other site 1538007242 ABC transporter signature motif; other site 1538007243 Walker B; other site 1538007244 D-loop; other site 1538007245 H-loop/switch region; other site 1538007246 Predicted permease; Region: FtsX; cl11418 1538007247 Predicted permease; Region: FtsX; cl11418 1538007248 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1538007249 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1538007250 Coenzyme A binding pocket; other site 1538007251 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1538007252 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1538007253 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 alpha-; Region: HCP_like; cl00255 1538007254 hydroxylamine reductase; Provisional; Region: PRK12310 1538007255 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 1538007256 hybrid metal cluster; other site 1538007257 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1538007258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007259 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 1538007260 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by...; Region: init_cond_enzymes; cd00827 1538007261 dimer interface; other site 1538007262 active site 1538007263 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 1538007264 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1538007265 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1538007266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007268 BCCT family transporter; Region: BCCT; cl00569 1538007269 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 1538007270 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 1538007271 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 1538007272 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1538007273 dimer interface; other site 1538007274 active site 1538007275 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 1538007276 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538007277 metal-binding site 1538007278 active site 1538007279 I-site; other site 1538007280 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1538007281 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 1538007282 non-specific DNA binding site; other site 1538007283 salt bridge; other site 1538007284 sequence-specific DNA binding site; other site 1538007285 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; cl00630 1538007286 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1538007287 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; cl12031 1538007288 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538007289 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 1538007290 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 1538007291 non-specific DNA binding site; other site 1538007292 salt bridge; other site 1538007293 sequence-specific DNA binding site; other site 1538007294 RNA polymerase factor sigma-70; Validated; Region: PRK06811 1538007295 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538007296 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...; Region: Sigma70_r4; cd06171 1538007297 DNA binding residues 1538007298 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1538007299 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538007300 ATP binding site; other site 1538007301 Mg2+ binding site; other site 1538007302 G-X-G motif; other site 1538007303 Accessory gene regulator B; Region: AgrB; cl01873 1538007304 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 1538007305 H+ Antiporter protein; Region: 2A0121; TIGR00900 1538007306 putative substrate translocation pore; other site 1538007307 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 1538007308 DNA/RNA tunnel of bacterial DNA dependent RNA polymerase; Region: RNApol_Rpb2_rif; pfam12120 1538007309 aspartate aminotransferase; Provisional; Region: PRK07681 1538007310 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 1538007311 pyridoxal 5'-phosphate binding site; other site 1538007312 homodimer interface; other site 1538007313 catalytic residue; other site 1538007314 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1538007315 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...; Region: PBPb; cd00134 1538007316 substrate binding pocket; other site 1538007317 membrane-bound complex binding site; other site 1538007318 hinge residues; other site 1538007319 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538007320 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1538007321 dimer interface; other site 1538007322 conserved gate region; other site 1538007323 putative PBP binding loops; other site 1538007324 ABC-ATPase subunit interface; other site 1538007325 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1538007326 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 1538007327 Walker A/P-loop; other site 1538007328 ATP binding site; other site 1538007329 Q-loop/lid; other site 1538007330 ABC transporter signature motif; other site 1538007331 Walker B; other site 1538007332 D-loop; other site 1538007333 H-loop/switch region; other site 1538007334 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1538007335 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues...; Region: MR_like; cd03316 1538007336 active site pocket 1538007337 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...; Region: PBPb; cl11400 1538007338 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538007339 dimer interface; other site 1538007340 conserved gate region; other site 1538007341 putative PBP binding loops; other site 1538007342 ABC-ATPase subunit interface; other site 1538007343 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1538007344 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 1538007345 Walker A/P-loop; other site 1538007346 ATP binding site; other site 1538007347 Q-loop/lid; other site 1538007348 ABC transporter signature motif; other site 1538007349 Walker B; other site 1538007350 D-loop; other site 1538007351 H-loop/switch region; other site 1538007352 NIL domain; Region: NIL; pfam09383 1538007353 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 1538007354 SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of...; Region: SelB; cd04171 1538007355 G1 box; other site 1538007356 putative GEF interaction site; other site 1538007357 GTP/Mg2+ binding site; other site 1538007358 Switch I region; other site 1538007359 G2 box; other site 1538007360 G3 box; other site 1538007361 Switch II region; other site 1538007362 G4 box; other site 1538007363 G5 box; other site 1538007364 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires...; Region: selB_II; cd03696 1538007365 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1538007366 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1538007367 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1538007368 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 1538007369 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1538007370 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 1538007371 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1538007372 dimerization interface; other site 1538007373 putative ATP binding site; other site 1538007374 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 1538007375 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1538007376 pyridoxal 5'-phosphate binding pocket; other site 1538007377 catalytic residue; other site 1538007378 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538007379 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538007380 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 1538007381 putative dimerization interface; other site 1538007382 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 1538007383 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by...; Region: init_cond_enzymes; cd00827 1538007384 dimer interface; other site 1538007385 active site 1538007386 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 1538007387 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 1538007388 catalytic residues; other site 1538007389 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1538007390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007392 BCCT family transporter; Region: BCCT; cl00569 1538007393 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 1538007394 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 1538007395 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 1538007396 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538007397 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538007398 Predicted permease; Region: DUF318; cl00487 1538007399 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1538007400 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 1538007401 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1538007402 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 1538007403 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1538007404 Uncharacterized conserved protein [Function unknown]; Region: COG3535 1538007405 Protein of unknown function (DUF917); Region: DUF917; pfam06032 1538007406 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes...; Region: NADPH_oxidoreductase_1; cd02150 1538007407 putative FMN binding site; other site 1538007408 Sodium:solute symporter family; Region: SSF; cl00456 1538007409 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1538007410 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1538007411 active site 1538007412 catalytic triad; other site 1538007413 dimer interface; other site 1538007414 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1538007415 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1538007416 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 1538007417 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538007418 Amino acid permease; Region: AA_permease; pfam00324 1538007419 carbamate kinase; Reviewed; Region: PRK12686 1538007420 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1538007421 putative substrate binding site; other site 1538007422 nucleotide binding site; other site 1538007423 nucleotide binding site; other site 1538007424 homodimer interface; other site 1538007425 ornithine carbamoyltransferase; Provisional; Region: PRK04284 1538007426 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1538007427 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1538007428 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538007429 Cache domain; Region: Cache_1; pfam02743 1538007430 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1538007431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538007432 active site 1538007433 phosphorylation site 1538007434 intermolecular recognition site; other site 1538007435 dimerization interface; other site 1538007436 YcbB domain; Region: YcbB; pfam08664 1538007437 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538007438 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538007439 active site 1538007440 phosphorylation site 1538007441 intermolecular recognition site; other site 1538007442 dimerization interface; other site 1538007443 YcbB domain; Region: YcbB; pfam08664 1538007444 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1538007445 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538007446 ATP binding site; other site 1538007447 Mg2+ binding site; other site 1538007448 G-X-G motif; other site 1538007449 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 1538007450 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 1538007451 putative peptidoglycan binding site; other site 1538007452 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 1538007453 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 1538007454 active site 1538007455 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 1538007456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007457 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1538007458 SAF domain; Region: SAF; cl00555 1538007459 Glycerate kinase family; Region: Gly_kinase; cl00841 1538007460 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 1538007461 d-galactonate transporter; Region: 2A0114; TIGR00893 1538007462 putative substrate translocation pore; other site 1538007463 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1538007464 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of...; Region: D-glucarate_dehydratase; cd03323 1538007465 active site 1538007466 tetramer interface; other site 1538007467 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; cl09110 1538007468 gluconate transporter; Region: gntP; TIGR00791 1538007469 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1538007470 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of...; Region: D-glucarate_dehydratase; cd03323 1538007471 active site 1538007472 tetramer interface; other site 1538007473 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1538007474 metal-binding site 1538007475 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1538007476 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; cd00625 1538007477 transmembrane helices; other site 1538007478 spermidine synthase; Provisional; Region: PRK00811 1538007479 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; cl12011 1538007480 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...; Region: Aldo_ket_red; cd06660 1538007481 active site 1538007482 catalytic tetrad; other site 1538007483 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1538007484 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1538007485 Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family...; Region: DHDPS-like; cd00408 1538007486 inhibitor site; inhibition site 1538007487 active site 1538007488 dimer interface; other site 1538007489 catalytic residue; other site 1538007490 adenosine deaminase; Provisional; Region: PRK09358 1538007491 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...; Region: metallo-dependent_hydrolases; cl00281 1538007492 active site 1538007493 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538007494 metal-binding site 1538007495 active site 1538007496 I-site; other site 1538007497 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1538007498 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 1538007499 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1538007500 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1538007501 THUMP domain; Region: THUMP; cl12076 1538007502 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 1538007503 Ligand Binding Site; other site 1538007504 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1538007505 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 1538007506 pyridoxal 5'-phosphate binding pocket; other site 1538007507 catalytic residue; other site 1538007508 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 1538007509 IDEAL domain; Region: IDEAL; pfam08858 1538007510 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1538007511 UvrD/REP helicase; Region: UvrD-helicase; cl14126 1538007512 Cyclopropane-fatty-acyl-phospholipid synthase; Region: CMAS; pfam02353 1538007513 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 1538007514 S-adenosylmethionine binding site; other site 1538007515 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1538007516 Domain of unknown function DUF21; Region: DUF21; pfam01595 1538007517 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 1538007518 Transporter associated domain; Region: CorC_HlyC; pfam03471 1538007519 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 1538007520 Accessory gene regulator B; Region: AgrB; cl01873 1538007521 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1538007522 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538007523 ATP binding site; other site 1538007524 Mg2+ binding site; other site 1538007525 G-X-G motif; other site 1538007526 potential frameshift: common BLAST hit: gi|153953446|ref|YP_001394211.1| signal transduction protein 1538007527 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538007528 active site 1538007529 I-site; other site 1538007530 metal-binding site 1538007531 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 1538007532 Predicted histidine kinase sensor domain; Region: Hist_Kin_Sens; pfam10114 1538007533 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1538007534 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1538007535 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 1538007536 RNA binding site; other site 1538007537 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 1538007538 RNA binding site; other site 1538007539 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 1538007540 RNA binding site; other site 1538007541 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 1538007542 RNA binding site; other site 1538007543 domain interface; other site 1538007544 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of highly-; Region: nylC_like; cd02252 1538007545 putative active site pocket; other site 1538007546 cleavage site 1538007547 Predicted membrane protein [Function unknown]; Region: COG4684 1538007548 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1538007549 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639 1538007550 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 1538007551 Walker A/P-loop; other site 1538007552 ATP binding site; other site 1538007553 Q-loop/lid; other site 1538007554 ABC transporter signature motif; other site 1538007555 Walker B; other site 1538007556 D-loop; other site 1538007557 H-loop/switch region; other site 1538007558 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 1538007559 Cobalt transport protein; Region: CbiQ; cl00463 1538007560 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538007561 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538007562 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538007563 Protein of unknown function (DUF503); Region: DUF503; cl00669 1538007564 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 1538007565 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 1538007566 nickel binding site; other site 1538007567 hydrogenase 2 large subunit; Provisional; Region: PRK10467 1538007568 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 1538007569 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 1538007570 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 1538007571 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; cl12031 1538007572 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1538007573 substrate binding pocket; other site 1538007574 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1538007575 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; cl12031 1538007576 substrate binding pocket; other site 1538007577 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 1538007578 d-galactonate transporter; Region: 2A0114; TIGR00893 1538007579 putative substrate translocation pore; other site 1538007580 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 1538007581 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538007582 putative substrate translocation pore; other site 1538007583 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1538007584 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as...; Region: OYE_like_FMN_family; cd02803 1538007585 active site 1538007586 FMN binding site; other site 1538007587 substrate binding site; other site 1538007588 putative catalytic residue; other site 1538007589 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1538007590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007591 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1538007592 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1538007593 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as...; Region: OYE_like_FMN_family; cd02803 1538007594 active site 1538007595 FMN binding site; other site 1538007596 substrate binding site; other site 1538007597 putative catalytic residue; other site 1538007598 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1538007599 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007600 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1538007601 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1538007602 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1538007603 shikimate binding site; other site 1538007604 NAD(P) binding site; other site 1538007605 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase.) Catalyzes the cis-dehydration of 3-dehydroquinate via a covalent imine intermediate to produce dehydroshikimate. Dehydroquinase is the third enzyme in the shikimate pathway, which is...; Region: DHQase_I; cd00502 1538007606 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 1538007607 active site 1538007608 catalytic residue; other site 1538007609 dimer interface; other site 1538007610 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538007611 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538007612 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 1538007613 putative dimerization interface; other site 1538007614 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 1538007615 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 1538007616 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 1538007617 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1538007618 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial...; Region: VirB11-like_ATPase; cd01130 1538007619 ATP binding site; other site 1538007620 Walker A motif; other site 1538007621 hexamer interface; other site 1538007622 Walker B motif; other site 1538007623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538007624 active site 1538007625 phosphorylation site 1538007626 intermolecular recognition site; other site 1538007627 dimerization interface; other site 1538007628 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 1538007629 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly...; Region: CpaE_like; cd03111 1538007630 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly...; Region: CpaE_like; cd03111 1538007631 SAF domain; Region: SAF; cl00555 1538007632 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 1538007633 putative peptidoglycan binding site; other site 1538007634 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1538007635 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1538007636 TadE-like protein; Region: TadE; pfam07811 1538007637 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1538007638 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538007639 active site 1538007640 phosphorylation site 1538007641 intermolecular recognition site; other site 1538007642 dimerization interface; other site 1538007643 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...; Region: LuxR_C_like; cd06170 1538007644 DNA binding residues 1538007645 dimerization interface; other site 1538007646 Sensor protein DegS; Region: DegS; pfam05384 1538007647 Histidine kinase; Region: HisKA_3; pfam07730 1538007648 Histidine kinase-like ATPases; This family includes several ATP-binding 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 1538007649 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 1538007650 diiron binding motif; other site 1538007651 Transposase DDE domain; Region: Transposase_11; pfam01609 1538007652 Protein of unknown function (DUF1847); Region: DUF1847; cl02037 1538007653 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1538007654 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 1538007655 Walker A/P-loop; other site 1538007656 ATP binding site; other site 1538007657 Q-loop/lid; other site 1538007658 ABC transporter signature motif; other site 1538007659 Walker B; other site 1538007660 D-loop; other site 1538007661 H-loop/switch region; other site 1538007662 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1538007663 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538007664 dimer interface; other site 1538007665 conserved gate region; other site 1538007666 putative PBP binding loops; other site 1538007667 ABC-ATPase subunit interface; other site 1538007668 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...; Region: TroA-like; cl00262 1538007669 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...; Region: PBPb; cd00134 1538007670 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1538007671 substrate binding pocket; other site 1538007672 membrane-bound complex binding site; other site 1538007673 hinge residues; other site 1538007674 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 1538007675 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 1538007676 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-...; Region: CBS_pair_30; cd04643 1538007677 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cl00083 1538007678 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1538007679 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 1538007680 signature motif; other site 1538007681 active site 1538007682 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 1538007683 active site 1538007684 signature motif; other site 1538007685 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 1538007686 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1538007687 active site 1538007688 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1538007689 substrate binding site; other site 1538007690 metal-binding site 1538007691 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1538007692 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1538007693 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; cl11391 1538007694 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1538007695 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1538007696 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1538007697 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1538007698 shikimate kinase; Reviewed; Region: aroK; PRK00131 1538007699 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...; Region: SK; cd00464 1538007700 ADP binding site; other site 1538007701 magnesium binding site; other site 1538007702 putative shikimate binding site; other site 1538007703 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1538007704 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1538007705 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1538007706 shikimate binding site; other site 1538007707 NAD(P) binding site; other site 1538007708 Chorismate mutase type II; Region: CM_2; cl00693 1538007709 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1538007710 Prephenate dehydratase; Region: PDT; pfam00800 1538007711 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 1538007712 putative L-Phe binding site; other site 1538007713 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1538007714 Tetramer interface; other site 1538007715 active site 1538007716 FMN-binding site; other site 1538007717 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1538007718 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 1538007719 hinge; other site 1538007720 active site 1538007721 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1538007722 active site 1538007723 dimer interface; other site 1538007724 metal-binding site 1538007725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007726 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 1538007727 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 1538007728 NeuB family; Region: NeuB; cl00496 1538007729 NlpC/P60 family; Region: NLPC_P60; cl11438 1538007730 Bacterial SH3 domain; Region: SH3_3; cl02551 1538007731 Bacterial SH3 domain; Region: SH3_3; cl02551 1538007732 Bacterial SH3 domain; Region: SH3_3; cl02551 1538007733 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 1538007734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538007735 active site 1538007736 phosphorylation site 1538007737 intermolecular recognition site; other site 1538007738 dimerization interface; other site 1538007739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007740 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1538007741 Cache domain; Region: Cache_1; pfam02743 1538007742 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1538007743 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 connected by an extended linker. The...; Region: HAMP; cd06225 1538007744 dimerization interface; other site 1538007745 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538007746 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1538007747 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1538007748 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1538007749 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1538007750 Zn2+ binding site; other site 1538007751 Mg2+ binding site; other site 1538007752 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1538007753 Predicted histidine kinase sensor domain; Region: Hist_Kin_Sens; pfam10114 1538007754 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538007755 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538007756 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 1538007757 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538007758 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1538007759 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 1538007760 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 1538007761 Cupin domain; Region: Cupin_2; cl09118 1538007762 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538007763 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1538007764 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538007765 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1538007766 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 1538007767 dimer interface; other site 1538007768 PYR/PP interface; other site 1538007769 TPP binding site; other site 1538007770 substrate binding site; other site 1538007771 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 1538007772 Domain of unknown function; Region: EKR; pfam10371 1538007773 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 alpha-; Region: HCP_like; cl00255 1538007774 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 subfamily also includes proteins characterized as...; Region: TPP_PFOR_PNO; cd03377 1538007775 TPP-binding site; other site 1538007776 dimer interface; other site 1538007777 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 1538007778 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1538007779 Interdomain contacts; other site 1538007780 polygalacturonase; Region: PLN03003; cl14103 1538007781 Predicted ATPase [General function prediction only]; Region: COG3910 1538007782 ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains...; Region: ABC_Class2; cd03227 1538007783 Walker A/P-loop; other site 1538007784 ATP binding site; other site 1538007785 Q-loop/lid; other site 1538007786 ABC transporter signature motif; other site 1538007787 Walker B; other site 1538007788 D-loop; other site 1538007789 H-loop/switch region; other site 1538007790 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538007791 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1538007792 Bacterial transcriptional regulator; Region: IclR; pfam01614 1538007793 aspartate aminotransferase; Provisional; Region: PRK06108 1538007794 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 1538007795 pyridoxal 5'-phosphate binding site; other site 1538007796 homodimer interface; other site 1538007797 catalytic residue; other site 1538007798 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 alpha-; Region: HCP_like; cl00255 1538007799 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1538007800 FMN binding site; other site 1538007801 dimer interface; other site 1538007802 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1538007803 active site 1538007804 catalytic site; other site 1538007805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538007806 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538007807 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 1538007808 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538007809 DNA binding site 1538007810 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 1538007811 pyridoxal 5'-phosphate binding site; other site 1538007812 homodimer interface; other site 1538007813 catalytic residue; other site 1538007814 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1538007815 aspartate racemase; Region: asp_race; TIGR00035 1538007816 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538007817 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 1538007818 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 1538007819 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538007820 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538007821 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1538007822 Sulfite exporter TauE/SafE; Region: TauE; cl00498 1538007823 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 1538007824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007825 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 1538007826 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 rhodanese-...; Region: RHOD_Pyr_redox; cd01524 1538007827 active site residue 1538007828 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 two-...; Region: SirA_YedF_YeeD; cl00436 1538007829 CPxP motif; other site 1538007830 DsrE/DsrF-like family; Region: DrsE; cl00672 1538007831 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 1538007832 S-adenosylmethionine binding site; other site 1538007833 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1538007834 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 1538007835 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 1538007836 dimerization interface; other site 1538007837 putative DNA binding site; other site 1538007838 putative Zn2+ binding site; other site 1538007839 Predicted permease; Region: DUF318; cl00487 1538007840 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1538007841 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 1538007842 dimerization interface; other site 1538007843 putative DNA binding site; other site 1538007844 putative Zn2+ binding site; other site 1538007845 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1538007846 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 1538007847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538007848 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1538007849 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538007850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538007851 active site 1538007852 phosphorylation site 1538007853 intermolecular recognition site; other site 1538007854 dimerization interface; other site 1538007855 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...; Region: trans_reg_C; cd00383 1538007856 DNA binding site 1538007857 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1538007858 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538007859 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 trans-...; Region: HisKA; cd00082 1538007860 dimer interface; other site 1538007861 phosphorylation site 1538007862 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538007863 ATP binding site; other site 1538007864 Mg2+ binding site; other site 1538007865 G-X-G motif; other site 1538007866 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 1538007867 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1538007868 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 1538007869 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1538007870 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1538007871 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1538007872 active site 1538007873 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1538007874 active site 1538007875 catalytic triad; other site 1538007876 oxyanion hole; other site 1538007877 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; cl12011 1538007878 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 1538007879 active site 1538007880 putative substrate binding region; other site 1538007881 Predicted periplasmic protein (DUF2233); Region: DUF2233; cl10481 1538007882 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1538007883 PIN domain; Region: PIN; cl09128 1538007884 PhoH-like protein; Region: PhoH; cl12134 1538007885 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1538007886 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538007887 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538007888 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538007889 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538007890 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1538007891 active site 1538007892 oxyanion hole; other site 1538007893 catalytic triad; other site 1538007894 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 1538007895 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1538007896 E-class dimer interface; other site 1538007897 P-class dimer interface; other site 1538007898 active site 1538007899 Cu2+ binding site; other site 1538007900 Zn2+ binding site; other site 1538007901 Coat F domain; Region: Coat_F; cl02368 1538007902 Small acid-soluble spore protein H family; Region: SspH; cl06949 1538007903 short chain dehydrogenase; Provisional; Region: PRK06701 1538007904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007905 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1538007906 Enoate reductase (ER)-like FMN-binding domain. Enoate reductase catalyzes the NADH-dependent reduction of carbon-carbon double bonds of several molecules, including nonactivated 2-enoates, alpha,beta-unsaturated aldehydes, cyclic ketones, and...; Region: ER_like_FMN; cd02931 1538007907 putative active site; other site 1538007908 putative FMN binding site; other site 1538007909 putative substrate binding site; other site 1538007910 putative catalytic residue; other site 1538007911 putative 4Fe-4S cluster binding site; other site 1538007912 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1538007913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538007915 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538007916 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1538007917 RNA polymerase sigma factor; Provisional; Region: PRK11924 1538007918 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538007919 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...; Region: Sigma70_r4; cl01055 1538007920 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538007921 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538007922 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538007923 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1538007924 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...; Region: metallo-dependent_hydrolases; cl00281 1538007925 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen...; Region: AdeC; cd01295 1538007926 active site 1538007927 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...; Region: metallo-dependent_hydrolases; cl00281 1538007928 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1538007929 nucleoside/Zn binding site; other site 1538007930 dimer interface; other site 1538007931 catalytic motif; other site 1538007932 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1538007933 FAD binding domain; Region: FAD_binding_4; cl10516 1538007934 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1538007935 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1538007936 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1538007937 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1538007938 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 1538007939 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1538007940 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538007941 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1538007942 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1538007943 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 1538007944 active site 1538007945 putative substrate binding pocket; other site 1538007946 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...; Region: metallo-dependent_hydrolases; cl00281 1538007947 active site 1538007948 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 1538007949 TM-ABC transporter signature motif; other site 1538007950 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 1538007951 TM-ABC transporter signature motif; other site 1538007952 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1538007953 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 1538007954 Walker A/P-loop; other site 1538007955 ATP binding site; other site 1538007956 Q-loop/lid; other site 1538007957 ABC transporter signature motif; other site 1538007958 Walker B; other site 1538007959 D-loop; other site 1538007960 H-loop/switch region; other site 1538007961 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 1538007962 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1538007963 putative ligand binding site; other site 1538007964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1538007965 YheO-like PAS domain; Region: PAS_6; pfam08348 1538007966 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1538007967 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1538007968 active site 1538007969 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1538007970 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1538007971 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1538007972 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 1538007973 active site 1538007974 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538007975 active site 1538007976 phosphorylation site 1538007977 intermolecular recognition site; other site 1538007978 dimerization interface; other site 1538007979 GAF domain; Region: GAF; cl00853 1538007980 sensory histidine kinase AtoS; Provisional; Region: PRK11360 1538007981 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 trans-...; Region: HisKA; cd00082 1538007982 dimer interface; other site 1538007983 phosphorylation site 1538007984 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538007985 ATP binding site; other site 1538007986 Mg2+ binding site; other site 1538007987 G-X-G motif; other site 1538007988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538007989 active site 1538007990 phosphorylation site 1538007991 intermolecular recognition site; other site 1538007992 dimerization interface; other site 1538007993 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538007994 active site 1538007995 phosphorylation site 1538007996 intermolecular recognition site; other site 1538007997 dimerization interface; other site 1538007998 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 1538007999 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1538008000 Zn2+ binding site; other site 1538008001 Mg2+ binding site; other site 1538008002 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1538008003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538008004 active site 1538008005 phosphorylation site 1538008006 intermolecular recognition site; other site 1538008007 dimerization interface; other site 1538008008 LytTr DNA-binding domain; Region: LytTR; cl04498 1538008009 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1538008010 Histidine kinase-like ATPases; This family includes several ATP-binding 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 1538008011 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1538008012 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008013 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 trans-...; Region: HisKA; cd00082 1538008014 dimer interface; other site 1538008015 phosphorylation site 1538008016 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538008017 ATP binding site; other site 1538008018 Mg2+ binding site; other site 1538008019 G-X-G motif; other site 1538008020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538008021 active site 1538008022 phosphorylation site 1538008023 intermolecular recognition site; other site 1538008024 dimerization interface; other site 1538008025 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...; Region: trans_reg_C; cd00383 1538008026 DNA binding site 1538008027 Predicted permease; Region: FtsX; cl11418 1538008028 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538008029 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538008030 Walker A/P-loop; other site 1538008031 ATP binding site; other site 1538008032 Q-loop/lid; other site 1538008033 ABC transporter signature motif; other site 1538008034 Walker B; other site 1538008035 D-loop; other site 1538008036 H-loop/switch region; other site 1538008037 UvrD/REP helicase; Region: UvrD-helicase; cl14126 1538008038 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1538008039 UvrD/REP helicase; Region: UvrD-helicase; cl14126 1538008040 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1538008041 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538008042 Walker A/P-loop; other site 1538008043 ATP binding site; other site 1538008044 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1538008045 putative active site; other site 1538008046 putative metal-binding site; other site 1538008047 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; cl12031 1538008048 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1538008049 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538008050 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1538008051 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1538008052 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1538008053 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 1538008054 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1538008055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008056 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 1538008057 catalytic loop; other site 1538008058 iron binding site; other site 1538008059 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1538008060 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 alpha-; Region: HCP_like; cl00255 1538008061 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 1538008062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008063 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 1538008064 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 1538008065 FeS/SAM binding site; other site 1538008066 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1538008067 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 1538008068 Domain of unknown function; Region: DUF291; pfam03442 1538008069 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538008070 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 1538008071 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538008072 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538008073 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1538008074 Phage Tail Collar Domain; Region: Collar; pfam07484 1538008075 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538008076 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 1538008077 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 1538008078 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 1538008079 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538008080 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538008081 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 1538008082 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1538008083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008084 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538008085 Cache domain; Region: Cache_1; pfam02743 1538008086 methyl-accepting protein IV; Provisional; Region: PRK09793 1538008087 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538008088 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 1538008089 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 1538008090 PrpF protein; Region: PrpF; pfam04303 1538008091 aconitate hydratase; Validated; Region: PRK07229 1538008092 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1538008093 substrate binding site; other site 1538008094 ligand binding site; other site 1538008095 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...; Region: AcnA_Bact_Swivel; cd01579 1538008096 substrate binding site; other site 1538008097 Citrate lyase, alpha subunit (CitF); Region: CitF; pfam04223 1538008098 Coenzyme A transferase; Region: CoA_trans; cl00773 1538008099 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 1538008100 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 1538008101 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1538008102 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1538008103 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1538008104 putative NAD(P) binding site; other site 1538008105 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1538008106 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538008107 DNA binding site 1538008108 FCD domain; Region: FCD; cl11656 1538008109 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 1538008110 putative substrate translocation pore; other site 1538008111 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1538008112 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1538008113 active site 1538008114 putative substrate binding pocket; other site 1538008115 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 1538008116 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...; Region: Aldo_ket_red; cd06660 1538008117 active site 1538008118 catalytic tetrad; other site 1538008119 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1538008120 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1538008121 Coenzyme A binding pocket; other site 1538008122 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538008123 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538008124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008126 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1538008127 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538008128 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538008129 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1538008130 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008131 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1538008132 L-serine binding site; other site 1538008133 ACT domain interface; other site 1538008134 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1538008135 synthetase active site; other site 1538008136 NTP binding site; other site 1538008137 metal-binding site 1538008138 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538008139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538008140 active site 1538008141 phosphorylation site 1538008142 intermolecular recognition site; other site 1538008143 dimerization interface; other site 1538008144 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...; Region: trans_reg_C; cd00383 1538008145 DNA binding site 1538008146 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 trans-...; Region: HisKA; cd00082 1538008147 dimer interface; other site 1538008148 phosphorylation site 1538008149 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538008150 ATP binding site; other site 1538008151 Mg2+ binding site; other site 1538008152 G-X-G motif; other site 1538008153 sensory histidine kinase AtoS; Provisional; Region: PRK11360 1538008154 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1538008155 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 1538008156 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 1538008157 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538008158 metal-binding site 1538008159 active site 1538008160 I-site; other site 1538008161 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 1538008162 Domain of unknown function (DUF336); Region: DUF336; cl01249 1538008163 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538008164 metal-binding site 1538008165 active site 1538008166 I-site; other site 1538008167 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1538008168 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1538008169 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 1538008170 generic binding surface II; other site 1538008171 generic binding surface I; other site 1538008172 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 1538008173 DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved...; Region: DEDDh; cd06127 1538008174 active site 1538008175 substrate binding site; other site 1538008176 catalytic site; other site 1538008177 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1538008178 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1538008179 conserved cys residue; other site 1538008180 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1538008181 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 1538008182 active site 1538008183 metal-binding site 1538008184 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1538008185 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as...; Region: OYE_like_FMN_family; cd02803 1538008186 active site 1538008187 FMN binding site; other site 1538008188 substrate binding site; other site 1538008189 putative catalytic residue; other site 1538008190 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1538008191 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008192 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 1538008193 putative substrate translocation pore; other site 1538008194 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1538008195 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538008196 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1538008197 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; cl12031 1538008198 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 1538008199 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538008200 putative substrate translocation pore; other site 1538008201 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 1538008202 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538008203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008204 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538008205 dimerization interface; other site 1538008206 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1538008207 hypothetical protein; Provisional; Region: PRK10281 1538008208 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1538008209 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 1538008210 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538008211 metal-binding site 1538008212 active site 1538008213 I-site; other site 1538008214 potential frameshift: common BLAST hit: gi|148245156|ref|YP_001219849.1| DNA methylase 1538008215 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 1538008216 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 1538008217 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1538008218 B3/4 domain; Region: B3_4; cl11458 1538008219 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 1538008220 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1538008221 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1538008222 Transposase; Region: Transposase_9; pfam01548 1538008223 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1538008224 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1538008225 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 1538008226 active site 1538008227 metal-binding site 1538008228 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1538008229 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1538008230 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 1538008231 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1538008232 Phage terminase large subunit; Region: Terminase_3; cl12054 1538008233 NUMOD4 motif; Region: NUMOD4; pfam07463 1538008234 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cl00083 1538008235 Phage terminase small subunit; Region: Phage_terminase; pfam10668 1538008236 Terminase small subunit; Region: Terminase_2; cl01513 1538008237 YcfA-like protein; Region: YcfA; cl00752 1538008238 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 1538008239 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 1538008240 dockerin binding interface; other site 1538008241 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 1538008242 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 1538008243 non-specific DNA binding site; other site 1538008244 salt bridge; other site 1538008245 sequence-specific DNA binding site; other site 1538008246 Domain of unknown function (DUF955); Region: DUF955; cl01076 1538008247 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 1538008248 non-specific DNA binding site; other site 1538008249 salt bridge; other site 1538008250 sequence-specific DNA binding site; other site 1538008251 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 1538008252 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 1538008253 Replication initiation and membrane attachment protein (DnaB); Region: DnaB_2; cl12121 1538008254 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538008255 RecT family; Region: RecT; cl04285 1538008256 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538008257 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1538008258 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1538008259 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 1538008260 non-specific DNA binding site; other site 1538008261 salt bridge; other site 1538008262 sequence-specific DNA binding site; other site 1538008263 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 1538008264 non-specific DNA binding site; other site 1538008265 salt bridge; other site 1538008266 sequence-specific DNA binding site; other site 1538008267 Domain of unknown function (DUF955); Region: DUF955; cl01076 1538008268 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1538008269 Phage integrase family; Region: Phage_integrase; pfam00589 1538008270 Int/Topo IB signature motif; other site 1538008271 potential frameshift: common BLAST hit: gi|225870843|ref|YP_002746790.1| transposase 1538008272 potential frameshift: common BLAST hit: gi|225870843|ref|YP_002746790.1| transposase 1538008273 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1538008274 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 1538008275 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...; Region: TM_ABC_iron-siderophores_like; cd06550 1538008276 ABC-ATPase subunit interface; other site 1538008277 dimer interface; other site 1538008278 putative PBP binding regions; other site 1538008279 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 1538008280 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a...; Region: CobA_CobO_BtuR; cd00561 1538008281 homodimer interface; other site 1538008282 Walker A motif; other site 1538008283 ATP binding site; other site 1538008284 hydroxycobalamin binding site; other site 1538008285 Walker B motif; other site 1538008286 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 1538008287 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 1538008288 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 1538008289 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 1538008290 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and...; Region: Chelatase_Class_II; cl02784 1538008291 active site 1538008292 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 1538008293 active site 1538008294 N-terminal domain interface; other site 1538008295 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 1538008296 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 1538008297 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1538008298 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1538008299 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 1538008300 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 1538008301 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 1538008302 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 1538008303 S-adenosylmethionine binding site; other site 1538008304 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 1538008305 CbiD; Region: CbiD; cl00828 1538008306 Precorrin-8X methylmutase; Region: CbiC; cl00913 1538008307 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1538008308 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1538008309 putative dimer interface; other site 1538008310 active site pocket 1538008311 putative cataytic base; other site 1538008312 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1538008313 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538008314 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1538008315 catalytic triad; other site 1538008316 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 1538008317 dimer interface; other site 1538008318 active site 1538008319 Schiff base residues; other site 1538008320 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 1538008321 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations...; Region: HemD; cd06578 1538008322 active site 1538008323 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 1538008324 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1538008325 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 1538008326 domain interfaces; other site 1538008327 active site 1538008328 precorrin-2 dehydrogenase; Provisional; Region: PRK05562 1538008329 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 1538008330 pyridoxal 5'-phosphate binding site; other site 1538008331 homodimer interface; other site 1538008332 catalytic residue; other site 1538008333 CobD/Cbib protein; Region: CobD_Cbib; cl00561 1538008334 cobyric acid synthase; Provisional; Region: PRK00784 1538008335 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538008336 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538008337 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1538008338 catalytic triad; other site 1538008339 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1538008340 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 1538008341 Walker A/P-loop; other site 1538008342 ATP binding site; other site 1538008343 Q-loop/lid; other site 1538008344 ABC transporter signature motif; other site 1538008345 Walker B; other site 1538008346 D-loop; other site 1538008347 H-loop/switch region; other site 1538008348 Cobalt transport protein; Region: CbiQ; cl00463 1538008349 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1538008350 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...; Region: ADPRase_NUDT5; cd03424 1538008351 dimer interface; other site 1538008352 active site 1538008353 ADP-ribose binding site; other site 1538008354 nudix motif; other site 1538008355 metal-binding site 1538008356 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538008357 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 1538008358 DNA binding site 1538008359 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 1538008360 pyridoxal 5'-phosphate binding site; other site 1538008361 homodimer interface; other site 1538008362 catalytic residue; other site 1538008363 Predicted membrane protein [Function unknown]; Region: COG1511 1538008364 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1538008365 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1538008366 Predicted membrane protein [Function unknown]; Region: COG1511 1538008367 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1538008368 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1538008369 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr (; Region: PTPc; cl00053 1538008370 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...; Region: PBPb; cl11400 1538008371 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1538008372 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1538008373 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 1538008374 alanine racemase; Reviewed; Region: alr; PRK00053 1538008375 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1538008376 active site 1538008377 pyridoxal 5'-phosphate (PLP) binding site; other site 1538008378 dimer interface; other site 1538008379 substrate binding site; other site 1538008380 catalytic residues; other site 1538008381 EamA-like transporter family; Region: EamA; cl01037 1538008382 EamA-like transporter family; Region: EamA; cl01037 1538008383 Uncharacterized BCR, COG1937; Region: DUF156; cl00846 1538008384 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1538008385 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538008386 Beta-Casp domain; Region: Beta-Casp; pfam10996 1538008387 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1538008388 Protein of unknown function (DUF554); Region: DUF554; cl00784 1538008389 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 1538008390 FMN binding site; other site 1538008391 dimer interface; other site 1538008392 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1538008393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008394 Protein of unknown function (DUF975); Region: DUF975; cl10504 1538008395 Protein of unknown function (DUF975); Region: DUF975; cl10504 1538008396 drug efflux system protein MdtG; Provisional; Region: PRK09874 1538008397 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 1538008398 putative substrate translocation pore; other site 1538008399 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 1538008400 active site 1538008401 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008402 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 1538008403 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1538008404 Replication initiation and membrane attachment protein (DnaB); Region: DnaB_2; cl12121 1538008405 TfoX N-terminal domain; Region: TfoX_N; cl01167 1538008406 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538008407 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1538008408 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1538008409 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; cl12011 1538008410 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 1538008411 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1538008412 EamA-like transporter family; Region: EamA; cl01037 1538008413 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1538008414 EamA-like transporter family; Region: EamA; cl01037 1538008415 Abi-like protein; Region: Abi_2; cl01988 1538008416 Abi-like protein; Region: Abi_2; cl01988 1538008417 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538008418 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 1538008419 Phage integrase family; Region: Phage_integrase; pfam00589 1538008420 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1538008421 Int/Topo IB signature motif; other site 1538008422 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 1538008423 non-specific DNA binding site; other site 1538008424 salt bridge; other site 1538008425 sequence-specific DNA binding site; other site 1538008426 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 1538008427 non-specific DNA binding site; other site 1538008428 salt bridge; other site 1538008429 sequence-specific DNA binding site; other site 1538008430 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 1538008431 non-specific DNA binding site; other site 1538008432 salt bridge; other site 1538008433 sequence-specific DNA binding site; other site 1538008434 Replication initiation and membrane attachment protein (DnaB); Region: DnaB_2; cl12121 1538008435 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538008436 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 1538008437 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538008438 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538008439 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1538008440 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538008441 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...; Region: Sigma70_r4; cl01055 1538008442 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 1538008443 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1538008444 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1538008445 amidase catalytic site; other site 1538008446 Zn binding residues; other site 1538008447 substrate binding site; other site 1538008448 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1538008449 Ion channel; Region: Ion_trans_2; cl11596 1538008450 Archaeal putative transposase ISC1217; Region: Transposase_29; pfam04693 1538008451 Fic/DOC family; Region: Fic; cl00960 1538008452 Phd_YefM; Region: PhdYeFM; cl09153 1538008453 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 1538008454 putative ATP-dependent protease; Region: PHA01747; cl11979 1538008455 PglZ domain; Region: PglZ; cl12128 1538008456 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 1538008457 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; cl12011 1538008458 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 1538008459 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 1538008460 Abi-like protein; Region: Abi_2; cl01988 1538008461 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1538008462 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008464 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 1538008465 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538008466 putative substrate translocation pore; other site 1538008467 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 1538008468 non-specific DNA binding site; other site 1538008469 salt bridge; other site 1538008470 sequence-specific DNA binding site; other site 1538008471 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 1538008472 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1538008473 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 1538008474 putative substrate translocation pore; other site 1538008475 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1538008476 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 1538008477 active sites 1538008478 tetramer interface; other site 1538008479 Sodium:solute symporter family; Region: SSF; cl00456 1538008480 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1538008481 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1538008482 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...; Region: AAA; cd00009 1538008483 Walker A motif; other site 1538008484 ATP binding site; other site 1538008485 Walker B motif; other site 1538008486 arginine finger; other site 1538008487 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538008488 aspartate kinase; Reviewed; Region: PRK09034 1538008489 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 1538008490 nucleotide binding site; other site 1538008491 substrate binding site; other site 1538008492 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1538008493 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1538008494 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 1538008495 Uncharacterized conserved protein [Function unknown]; Region: COG3595 1538008496 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008497 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1538008498 oligomer interface; other site 1538008499 active site residues 1538008500 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1538008501 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538008502 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538008503 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 trans-...; Region: HisKA; cd00082 1538008504 dimer interface; other site 1538008505 phosphorylation site 1538008506 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538008507 ATP binding site; other site 1538008508 Mg2+ binding site; other site 1538008509 G-X-G motif; other site 1538008510 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538008511 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538008512 active site 1538008513 phosphorylation site 1538008514 intermolecular recognition site; other site 1538008515 dimerization interface; other site 1538008516 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...; Region: trans_reg_C; cd00383 1538008517 DNA binding site 1538008518 Man1-Src1p-C-terminal domain; Region: MSC; pfam09402 1538008519 Protein of unknown function (DUF434); Region: DUF434; cl04460 1538008520 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1538008521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538008522 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1538008523 Walker A/P-loop; other site 1538008524 ATP binding site; other site 1538008525 Q-loop/lid; other site 1538008526 ABC transporter signature motif; other site 1538008527 Walker B; other site 1538008528 D-loop; other site 1538008529 H-loop/switch region; other site 1538008530 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1538008531 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; cl14056 1538008532 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 1538008533 Ligand Binding Site; other site 1538008534 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 1538008535 dimer interface; other site 1538008536 substrate binding site; other site 1538008537 ATP binding site; other site 1538008538 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 1538008539 substrate binding site; other site 1538008540 multimerization interface; other site 1538008541 ATP binding site; other site 1538008542 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- (beta-...; Region: TMP_TenI; cd00564 1538008543 thiamine phosphate binding site; other site 1538008544 active site 1538008545 pyrophosphate binding site; other site 1538008546 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 1538008547 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 1538008548 motif II; other site 1538008549 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 1538008550 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_17; cd04676 1538008551 nudix motif; other site 1538008552 LrgB-like family; Region: LrgB; cl00596 1538008553 LrgA family; Region: LrgA; cl00608 1538008554 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1538008555 MatE; Region: MatE; pfam01554 1538008556 MatE; Region: MatE; pfam01554 1538008557 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008558 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538008559 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008560 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538008561 dimerization interface; other site 1538008562 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1538008563 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...; Region: PBPb; cd00134 1538008564 substrate binding pocket; other site 1538008565 membrane-bound complex binding site; other site 1538008566 hinge residues; other site 1538008567 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1538008568 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538008569 dimer interface; other site 1538008570 conserved gate region; other site 1538008571 putative PBP binding loops; other site 1538008572 ABC-ATPase subunit interface; other site 1538008573 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538008574 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538008575 recombination helicase AddA, Firmicutes type; Region: addA_Gpos; TIGR02785 1538008576 UvrD/REP helicase; Region: UvrD-helicase; cl14126 1538008577 UvrD/REP helicase; Region: UvrD-helicase; cl14126 1538008578 GAF domain; Region: GAF; cl00853 1538008579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538008580 metal-binding site 1538008581 active site 1538008582 I-site; other site 1538008583 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants...; Region: Thr-synth_2; cd01560 1538008584 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1538008585 pyridoxal 5'-phosphate binding site; other site 1538008586 catalytic residue; other site 1538008587 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1538008588 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 1538008589 pyridoxal 5'-phosphate binding pocket; other site 1538008590 catalytic residue; other site 1538008591 cobalt transport protein CbiM; Provisional; Region: PRK07331 1538008592 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 1538008593 lipoyl synthase; Provisional; Region: PRK05481 1538008594 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 1538008595 FeS/SAM binding site; other site 1538008596 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1538008597 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1538008598 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1538008599 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 1538008600 DNA binding site 1538008601 RNA-binding motif; other site 1538008602 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1538008603 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1538008604 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1538008605 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1538008606 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1538008607 putative L-serine binding site; other site 1538008608 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 1538008609 pyridoxal 5'-phosphate binding pocket; other site 1538008610 catalytic residue; other site 1538008611 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1538008612 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 1538008613 pyridoxal 5'-phosphate binding pocket; other site 1538008614 catalytic residue; other site 1538008615 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538008616 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008617 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538008618 dimerization interface; other site 1538008619 Sulfite exporter TauE/SafE; Region: TauE; cl00498 1538008620 Protein of unknown function (DUF1634); Region: DUF1634; cl01741 1538008621 Predicted membrane protein [Function unknown]; Region: COG1511 1538008622 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1538008623 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1538008624 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1538008625 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 1538008626 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 1538008627 NlpC/P60 family; Region: NLPC_P60; cl11438 1538008628 NC domain; Region: NC; pfam04970 1538008629 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1538008630 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 1538008631 FeS/SAM binding site; other site 1538008632 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1538008633 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1538008634 dinuclear metal binding motif; other site 1538008635 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1538008636 dimanganese center; other site 1538008637 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1538008638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008639 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 1538008640 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 1538008641 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1538008642 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538008643 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1538008644 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; cl09108 1538008645 phosphate binding site; other site 1538008646 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1538008647 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008648 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1538008649 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538008650 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1538008651 VanW like protein; Region: VanW; pfam04294 1538008652 putative hydrolase; Validated; Region: PRK09248 1538008653 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 1538008654 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 1538008655 active site 1538008656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008657 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1538008658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008659 Coat F domain; Region: Coat_F; cl02368 1538008660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008661 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1538008662 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 1538008663 [2Fe-2S] cluster binding site; other site 1538008664 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; cl12031 1538008665 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1538008666 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 catalyze...; Region: LT_GEWL; cd00254 1538008667 N-acetyl-D-glucosamine binding site; other site 1538008668 catalytic residue; other site 1538008669 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1538008670 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 1538008671 CoA-binding site; other site 1538008672 ATP-binding; other site 1538008673 DNA polymerase I; Provisional; Region: PRK05755 1538008674 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and...; Region: 53EXOc; cd00008 1538008675 metal binding site I; metal-binding site 1538008676 putative ssDNA interaction site; other site 1538008677 metal binding site II; metal-binding site 1538008678 Bacillus stearothermophilus-like Polymerase I (pol I), a subgroup of the family-A DNA polymerases, contains an inactive DnaQ-like 3'-5' exonuclease domain in the same polypeptide chain as the polymerase region. The exonuclease-like domain of these...; Region: DNA_polA_I_Bacillus_like_exo; cd06140 1538008679 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1538008680 active site 1538008681 DNA binding site 1538008682 catalytic site; other site 1538008683 Haemolysin-III related; Region: HlyIII; cl03831 1538008684 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1538008685 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 1538008686 dimer interface; other site 1538008687 anticodon binding site; other site 1538008688 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 the...; Region: AspRS_core; cd00777 1538008689 homodimer interface; other site 1538008690 motif 1; other site 1538008691 active site 1538008692 motif 2; other site 1538008693 GAD domain; Region: GAD; pfam02938 1538008694 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 the...; Region: AspRS_core; cd00777 1538008695 motif 3; other site 1538008696 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1538008697 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 ATP-dependent...; Region: HisRS-like_core; cd00773 1538008698 dimer interface; other site 1538008699 motif 1; other site 1538008700 active site 1538008701 motif 2; other site 1538008702 motif 3; other site 1538008703 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 1538008704 anticodon binding site; other site 1538008705 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 1538008706 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; cl14056 1538008707 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538008708 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...; Region: Dtyr_deacylase; cd00563 1538008709 putative active site; other site 1538008710 dimerization interface; other site 1538008711 putative tRNAtyr binding site; other site 1538008712 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1538008713 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1538008714 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1538008715 synthetase active site; other site 1538008716 NTP binding site; other site 1538008717 metal-binding site 1538008718 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...; Region: TGS_RelA_SpoT; cd01668 1538008719 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1538008720 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 1538008721 DHH family; Region: DHH; pfam01368 1538008722 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1538008723 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1538008724 Protein export membrane protein; Region: SecD_SecF; cl14618 1538008725 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1538008726 Protein export membrane protein; Region: SecD_SecF; cl14618 1538008727 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 1538008728 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 1538008729 FeS/SAM binding site; other site 1538008730 Preprotein translocase subunit; Region: YajC; cl00806 1538008731 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 1538008732 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 1538008733 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1538008734 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...; Region: AAA; cd00009 1538008735 Walker A motif; other site 1538008736 ATP binding site; other site 1538008737 Walker B motif; other site 1538008738 arginine finger; other site 1538008739 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1538008740 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1538008741 RuvA N terminal domain; Region: RuvA_N; pfam01330 1538008742 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1538008743 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538008744 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1538008745 dimerization interface; other site 1538008746 Domain of unknown function DUF28; Region: DUF28; cl00361 1538008747 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 1538008748 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1538008749 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1538008750 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 1538008751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538008752 DNA binding site 1538008753 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 1538008754 pyridoxal 5'-phosphate binding site; other site 1538008755 homodimer interface; other site 1538008756 catalytic residue; other site 1538008757 Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins; Region: NT_Pol-beta-like; cl11966 1538008758 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1538008759 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 1538008760 G1 box; other site 1538008761 GTP/Mg2+ binding site; other site 1538008762 Switch I region; other site 1538008763 G2 box; other site 1538008764 G3 box; other site 1538008765 Switch II region; other site 1538008766 G4 box; other site 1538008767 G5 box; other site 1538008768 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 1538008769 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 1538008770 Transglycosylase; Region: Transgly; cl07896 1538008771 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1538008772 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 1538008773 sporulation sigma factor SigF; Validated; Region: PRK05572 1538008774 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538008775 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1538008776 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...; Region: Sigma70_r4; cd06171 1538008777 DNA binding residues 1538008778 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538008779 ATP binding site; other site 1538008780 Mg2+ binding site; other site 1538008781 G-X-G motif; other site 1538008782 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 1538008783 anti sigma factor interaction site; other site 1538008784 regulatory phosphorylation site; other site 1538008785 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 1538008786 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; cl12011 1538008787 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 1538008788 Predicted transcriptional regulator [Transcription]; Region: COG1959 1538008789 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008790 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1538008791 Bacterial sugar transferase; Region: Bac_transf; cl00939 1538008792 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 1538008793 integral membrane protein MviN; Region: mviN; TIGR01695 1538008794 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 1538008795 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1538008796 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 1538008797 O-Antigen ligase; Region: Wzy_C; cl04850 1538008798 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 1538008799 active site 1538008800 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 1538008801 homodimer interface; other site 1538008802 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 1538008803 putative trimer interface; other site 1538008804 putative CoA binding site; other site 1538008805 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1538008806 putative trimer interface; other site 1538008807 putative active site; other site 1538008808 putative substrate binding site; other site 1538008809 putative CoA binding site; other site 1538008810 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1538008811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008812 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 1538008813 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1538008814 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1538008815 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1538008816 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1538008817 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538008818 integral membrane protein MviN; Region: mviN; TIGR01695 1538008819 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 1538008820 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1538008821 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 1538008822 Ligand binding site; other site 1538008823 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1538008824 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 1538008825 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core (; Region: GT1_wlbH_like; cd03798 1538008826 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1538008827 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1538008828 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 1538008829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008830 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1538008831 active site 1538008832 tetramer interface; other site 1538008833 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1538008834 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 1538008835 binding surface 1538008836 TPR motif; other site 1538008837 phosphoglucomutase; Provisional; Region: PTZ00150 1538008838 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 deoxyribose-1-...; Region: PGM2; cd05799 1538008839 active site 1538008840 substrate binding site; other site 1538008841 metal-binding site 1538008842 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1538008843 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and...; Region: Orn_deC_like; cd00615 1538008844 homodimer interface; other site 1538008845 pyridoxal 5'-phosphate binding site; other site 1538008846 catalytic residue; other site 1538008847 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1538008848 RNA polymerase factor sigma-70; Validated; Region: PRK06811 1538008849 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538008850 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...; Region: Sigma70_r4; cl01055 1538008851 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008852 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 1538008853 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 1538008854 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1538008855 active site 1538008856 HIGH motif; other site 1538008857 dimer interface; other site 1538008858 KMSKS motif; other site 1538008859 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; cl12031 1538008860 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008861 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 1538008862 manganese transport transcriptional regulator; Provisional; Region: PRK03902 1538008863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008864 Iron dependent repressor, metal binding and dimerization domain; Region: Fe_dep_repr_C; pfam02742 1538008865 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1538008866 active site 1538008867 substrate binding site; other site 1538008868 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1538008869 FMN binding site; other site 1538008870 putative catalytic residues; other site 1538008871 Protein of unknown function (DUF523); Region: DUF523; cl00733 1538008872 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1538008873 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 1538008874 Walker A/P-loop; other site 1538008875 ATP binding site; other site 1538008876 Q-loop/lid; other site 1538008877 ABC transporter signature motif; other site 1538008878 Walker B; other site 1538008879 D-loop; other site 1538008880 H-loop/switch region; other site 1538008881 Smr domain; Region: Smr; cl02619 1538008882 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1538008883 Peptidase family U32; Region: Peptidase_U32; pfam01136 1538008884 Collagenase; Region: DUF3656; pfam12392 1538008885 Peptidase family U32; Region: Peptidase_U32; pfam01136 1538008886 Cell division protein ZapA; Region: ZapA; cl01146 1538008887 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1538008888 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 1538008889 putative tRNA-binding site; other site 1538008890 B3/4 domain; Region: B3_4; cl11458 1538008891 tRNA synthetase B5 domain; Region: B5; cl08394 1538008892 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 1538008893 dimer interface; other site 1538008894 motif 1; other site 1538008895 motif 3; other site 1538008896 motif 2; other site 1538008897 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1538008898 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1538008899 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1538008900 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 1538008901 dimer interface; other site 1538008902 motif 1; other site 1538008903 active site 1538008904 motif 2; other site 1538008905 motif 3; other site 1538008906 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1538008907 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1538008908 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1538008909 Ribosomal protein L20; Region: Ribosomal_L20; cl00393 1538008910 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 1538008911 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1538008912 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1538008913 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1538008914 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1538008915 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase...; Region: TGS_ThrRS_N; cd01667 1538008916 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1538008917 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 1538008918 active site 1538008919 dimer interface; other site 1538008920 motif 1; other site 1538008921 motif 2; other site 1538008922 motif 3; other site 1538008923 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 1538008924 anticodon binding site; other site 1538008925 YtxC-like family; Region: YtxC; cl08500 1538008926 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1538008927 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1538008928 aspartate aminotransferase; Provisional; Region: PRK06108 1538008929 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 1538008930 pyridoxal 5'-phosphate binding site; other site 1538008931 homodimer interface; other site 1538008932 catalytic residue; other site 1538008933 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1538008934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008935 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1538008936 Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue...; Region: DHDPS; cd00950 1538008937 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1538008938 dimer interface; other site 1538008939 active site 1538008940 catalytic residue; other site 1538008941 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1538008942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008943 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 1538008944 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1538008945 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 1538008946 S-adenosylmethionine binding site; other site 1538008947 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1538008948 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 1538008949 dimerization interface; other site 1538008950 domain crossover interface; other site 1538008951 redox-dependent activation switch; other site 1538008952 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapD_N; pfam08503 1538008953 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1538008954 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA...; Region: LbH_THP_succinylT; cd03350 1538008955 trimer interface; other site 1538008956 active site 1538008957 substrate binding site; other site 1538008958 CoA binding site; other site 1538008959 single-stranded DNA-binding protein; Provisional; Region: PRK05813 1538008960 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1538008961 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 1538008962 dimer interface; other site 1538008963 ssDNA binding site; other site 1538008964 tetramer (dimer of dimers) interface; other site 1538008965 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 1538008966 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues...; Region: WD40; cl02567 1538008967 structural tetrad; other site 1538008968 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 1538008969 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1538008970 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1538008971 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1538008972 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1538008973 HIGH motif; other site 1538008974 active site 1538008975 nucleotide binding site; other site 1538008976 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1538008977 active site 1538008978 KMSKS motif; other site 1538008979 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1538008980 tRNA binding surface; other site 1538008981 anticodon binding site; other site 1538008982 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1538008983 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...; Region: PBPb; cl11400 1538008984 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1538008985 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 1538008986 Survival protein SurE; Region: SurE; cl00448 1538008987 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538008988 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538008989 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538008990 dimerization interface; other site 1538008991 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 1538008992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538008993 hypothetical protein; Validated; Region: PRK06201 1538008994 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1538008995 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 1538008996 d-galactonate transporter; Region: 2A0114; TIGR00893 1538008997 putative substrate translocation pore; other site 1538008998 dihydroorotase; Provisional; Region: PRK09237 1538008999 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...; Region: metallo-dependent_hydrolases; cl00281 1538009000 active site 1538009001 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538009002 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 1538009003 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 1538009004 TM-ABC transporter signature motif; other site 1538009005 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 1538009006 TM-ABC transporter signature motif; other site 1538009007 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1538009008 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538009009 Walker A/P-loop; other site 1538009010 ATP binding site; other site 1538009011 Q-loop/lid; other site 1538009012 ABC transporter signature motif; other site 1538009013 Walker B; other site 1538009014 D-loop; other site 1538009015 H-loop/switch region; other site 1538009016 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 1538009017 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1538009018 putative ligand binding site; other site 1538009019 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1538009020 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1538009021 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538009022 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538009023 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538009024 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1538009025 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538009026 Mor transcription activator family; Region: Mor; cl02360 1538009027 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 1538009028 putative FMN binding site; other site 1538009029 Cupin domain; Region: Cupin_2; cl09118 1538009030 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538009031 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1538009032 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538009033 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 1538009034 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538009035 putative substrate translocation pore; other site 1538009036 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 1538009037 putative substrate translocation pore; other site 1538009038 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538009039 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 1538009040 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 1538009041 substrate binding site; other site 1538009042 multimerization interface; other site 1538009043 ATP binding site; other site 1538009044 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1538009045 DNA binding residues 1538009046 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 1538009047 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538009048 Putative esterase; Region: Esterase; pfam00756 1538009049 TfoX N-terminal domain; Region: TfoX_N; cl01167 1538009050 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538009051 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 1538009052 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538009053 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1538009054 active site 1538009055 putative substrate binding region; other site 1538009056 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 1538009057 conserved cys residue; other site 1538009058 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538009059 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 1538009060 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538009061 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538009062 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1538009063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538009064 active site 1538009065 phosphorylation site 1538009066 intermolecular recognition site; other site 1538009067 LytTr DNA-binding domain; Region: LytTR; cl04498 1538009068 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1538009069 Histidine kinase-like ATPases; This family includes several ATP-binding 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 1538009070 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1538009071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538009072 Walker A/P-loop; other site 1538009073 ATP binding site; other site 1538009074 Q-loop/lid; other site 1538009075 ABC transporter signature motif; other site 1538009076 Walker B; other site 1538009077 D-loop; other site 1538009078 H-loop/switch region; other site 1538009079 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1538009080 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 1538009081 Beta-lactamase; Region: Beta-lactamase; cl01009 1538009082 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1538009083 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes...; Region: NADPH_oxidoreductase_1; cd02150 1538009084 putative FMN binding site; other site 1538009085 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 1538009086 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538009087 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 1538009088 Walker A/P-loop; other site 1538009089 ATP binding site; other site 1538009090 Q-loop/lid; other site 1538009091 ABC transporter signature motif; other site 1538009092 Walker B; other site 1538009093 D-loop; other site 1538009094 H-loop/switch region; other site 1538009095 Predicted transcriptional regulators [Transcription]; Region: COG1725 1538009096 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538009097 DNA binding site 1538009098 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1538009099 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1538009100 catalytic residues; other site 1538009101 catalytic nucleophile; other site 1538009102 Recombinase; Region: Recombinase; pfam07508 1538009103 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1538009104 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...; Region: PBPb; cl11400 1538009105 ROK family; Region: ROK; cl09121 1538009106 ROK family; Region: ROK; cl09121 1538009107 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1538009108 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl12083 1538009109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1538009110 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1538009111 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 1538009112 Walker A/P-loop; other site 1538009113 ATP binding site; other site 1538009114 Q-loop/lid; other site 1538009115 ABC transporter signature motif; other site 1538009116 Walker B; other site 1538009117 D-loop; other site 1538009118 H-loop/switch region; other site 1538009119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 1538009120 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 1538009121 binding surface 1538009122 TPR motif; other site 1538009123 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 1538009124 recombination regulator RecX; Provisional; Region: recX; PRK14134 1538009125 RecX family; Region: RecX; cl00936 1538009126 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1538009127 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1538009128 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1538009129 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1538009130 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 1538009131 ATP binding site; other site 1538009132 Mg++ binding site; other site 1538009133 motif III; other site 1538009134 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 1538009135 nucleotide binding region; other site 1538009136 ATP-binding site; other site 1538009137 DbpA RNA binding domain; Region: DbpA; pfam03880 1538009138 Flavin Reductases; Region: FlaRed; cl00801 1538009139 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 1538009140 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1538009141 domain; Region: GreA_GreB_N; pfam03449 1538009142 C-term; Region: GreA_GreB; pfam01272 1538009143 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1538009144 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 1538009145 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 1538009146 catalytic residue; other site 1538009147 putative FPP diphosphate binding site; other site 1538009148 putative FPP binding hydrophobic cleft; other site 1538009149 dimer interface; other site 1538009150 putative IPP diphosphate binding site; other site 1538009151 Cation efflux family; Region: Cation_efflux; cl00316 1538009152 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 1538009153 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 1538009154 ApbE family; Region: ApbE; cl00643 1538009155 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 1538009156 homotrimer interface; other site 1538009157 Walker A motif; other site 1538009158 GTP binding site; other site 1538009159 Walker B motif; other site 1538009160 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 1538009161 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 1538009162 catalytic core; other site 1538009163 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1538009164 metal binding site 2; metal-binding site 1538009165 putative DNA binding helix; other site 1538009166 metal binding site 1; metal-binding site 1538009167 dimer interface; other site 1538009168 structural Zn2+ binding site; other site 1538009169 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1538009170 Predicted transcriptional regulator [Transcription]; Region: COG2378 1538009171 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538009172 CAAX amino terminal protease family; Region: Abi; cl00558 1538009173 GTP-binding protein; Provisional; Region: PRK04213 1538009174 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 1538009175 G1 box; other site 1538009176 GTP/Mg2+ binding site; other site 1538009177 Switch I region; other site 1538009178 G2 box; other site 1538009179 G3 box; other site 1538009180 Switch II region; other site 1538009181 G4 box; other site 1538009182 G5 box; other site 1538009183 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1538009184 Found in ATP-dependent protease La (LON); Region: LON; cl01056 1538009185 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...; Region: AAA; cd00009 1538009186 Walker A motif; other site 1538009187 ATP binding site; other site 1538009188 Walker B motif; other site 1538009189 arginine finger; other site 1538009190 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1538009191 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1538009192 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1538009193 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...; Region: AAA; cd00009 1538009194 Walker A motif; other site 1538009195 ATP binding site; other site 1538009196 Walker B motif; other site 1538009197 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1538009198 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1538009199 oligomer interface; other site 1538009200 active site residues 1538009201 trigger factor; Provisional; Region: tig; PRK01490 1538009202 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 1538009203 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1538009204 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1538009205 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 D-arabino-6-...; Region: AP2Ec; cl12060 1538009206 DNA interaction; other site 1538009207 Metal-binding active site; metal-binding site 1538009208 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 1538009209 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 1538009210 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1538009211 heterodimer interface; other site 1538009212 active site 1538009213 FMN binding site; other site 1538009214 homodimer interface; other site 1538009215 substrate binding site; other site 1538009216 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1538009217 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 1538009218 FAD binding pocket; other site 1538009219 FAD binding motif; other site 1538009220 phosphate binding motif; other site 1538009221 beta-alpha-beta structure motif; other site 1538009222 NAD binding pocket; other site 1538009223 Iron coordination center; other site 1538009224 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 contains two...; Region: OMP_decarboxylase_like; cd04725 1538009225 active site 1538009226 dimer interface; other site 1538009227 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 1538009228 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 1538009229 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 1538009230 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1538009231 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1538009232 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1538009233 ROK family; Region: ROK; cl09121 1538009234 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 1538009235 N subunit; Region: benz_CoA_bzdN; cl11464 1538009236 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1538009237 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1538009238 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 1538009239 putative substrate translocation pore; other site 1538009240 methionine aminopeptidase; Reviewed; Region: PRK07281 1538009241 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 1538009242 active site 1538009243 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1538009244 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1538009245 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1538009246 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 1538009247 potential frameshift: common BLAST hit: gi|153954852|ref|YP_001395617.1| signal transduction protein 1538009248 potential frameshift: common BLAST hit: gi|150018132|ref|YP_001310386.1| diguanylate cyclase/phosphodiesterase 1538009249 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 1538009250 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; cl00290 1538009251 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 1538009252 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538009253 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538009254 dihydropyrimidine dehydrogenase; Validated; Region: PRK08318 1538009255 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 1538009256 homodimer interface; other site 1538009257 active site 1538009258 FMN binding site; other site 1538009259 substrate binding site; other site 1538009260 putative oxidoreductase; Provisional; Region: PRK11749 1538009261 phenylhydantoinase; Validated; Region: PRK08323 1538009262 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like...; Region: D-HYD; cd01314 1538009263 tetramer interface; other site 1538009264 active site 1538009265 Sodium:solute symporter family; Region: SSF; cl00456 1538009266 allantoate amidohydrolase; Reviewed; Region: PRK09290 1538009267 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538009268 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538009269 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 1538009270 hypothetical protein; Provisional; Region: PRK06062 1538009271 inhibitor-cofactor binding pocket; inhibition site 1538009272 pyridoxal 5'-phosphate binding site; other site 1538009273 catalytic residue; other site 1538009274 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1538009275 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1538009276 active site 1538009277 NAD binding site; other site 1538009278 metal-binding site 1538009279 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1538009280 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1538009281 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538009282 metal-binding site 1538009283 I-site; other site 1538009284 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1538009285 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 1538009286 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538009287 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 1538009288 Aminotransferase class IV; Region: Aminotran_4; pfam01063 1538009289 pyridoxal 5'-phosphate binding site; other site 1538009290 catalytic residue; other site 1538009291 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1538009292 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1538009293 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1538009294 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1538009295 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1538009296 glutamine binding; other site 1538009297 catalytic triad; other site 1538009298 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1538009299 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1538009300 DNA binding residues 1538009301 putative dimer interface; other site 1538009302 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538009303 metal-binding site 1538009304 active site 1538009305 I-site; other site 1538009306 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 1538009307 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 1538009308 octamerization interface; other site 1538009309 diferric-oxygen binding site; other site 1538009310 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538009311 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 1538009312 putative substrate translocation pore; other site 1538009313 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 1538009314 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1538009315 putative active site; other site 1538009316 putative metal binding site; other site 1538009317 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 1538009318 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...; Region: 4HBT; cd00586 1538009319 active site 1538009320 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 1538009321 binding surface 1538009322 TPR motif; other site 1538009323 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1538009324 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 1538009325 binding surface 1538009326 TPR motif; other site 1538009327 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 1538009328 binding surface 1538009329 TPR motif; other site 1538009330 Chromate transporter; Region: Chromate_transp; cl00902 1538009331 Chromate transporter; Region: Chromate_transp; cl00902 1538009332 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538009333 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538009334 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes...; Region: NADPH_oxidoreductase_1; cd02150 1538009335 putative FMN binding site; other site 1538009336 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 1538009337 This subfamily is composed of uncharacterized bacterial proteins with similarity to the epsilon subunit of DNA polymerase III (polIII), a multisubunit polymerase which is the main DNA replicating enzyme in bacteria, functioning as the chromosomal...; Region: DNA_pol_III_epsilon_like; cd06130 1538009338 active site 1538009339 substrate binding site; other site 1538009340 catalytic site; other site 1538009341 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; cl00038 1538009342 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1538009343 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 1538009344 FeS/SAM binding site; other site 1538009345 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1538009346 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 1538009347 S-adenosylmethionine binding site; other site 1538009348 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1538009349 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; cl09110 1538009350 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; cl09110 1538009351 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1538009352 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1538009353 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 1538009354 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...; Region: AAA; cd00009 1538009355 Walker A motif; other site 1538009356 ATP binding site; other site 1538009357 Walker B motif; other site 1538009358 arginine finger; other site 1538009359 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1538009360 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1538009361 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538009362 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538009363 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538009364 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538009365 Domain of unknown function (DUF955); Region: DUF955; cl01076 1538009366 DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved...; Region: DEDDh; cd06127 1538009367 active site 1538009368 substrate binding site; other site 1538009369 catalytic site; other site 1538009370 Terminase small subunit; Region: Terminase_2; cl01513 1538009371 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1538009372 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538009373 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538009374 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1538009375 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1538009376 NlpC/P60 family; Region: NLPC_P60; cl11438 1538009377 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 1538009378 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...; Region: Sigma70_r4; cl01055 1538009379 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 1538009380 ATP binding site; other site 1538009381 putative Mg++ binding site; other site 1538009382 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 1538009383 nucleotide binding region; other site 1538009384 ATP-binding site; other site 1538009385 VRR-NUC domain; Region: VRR_NUC; pfam08774 1538009386 adenylosuccinate synthetase; Provisional; Region: PTZ00350 1538009387 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 1538009388 Virulence-associated protein E; Region: VirE; cl12099 1538009389 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 1538009390 The DnaQ-like exonuclease superfamily is a structurally conserved group of 3'-5' exonucleases, which catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. It is also called the DEDD superfamily, after the...; Region: DnaQ_like_exo; cl10012 1538009391 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 1538009392 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 1538009393 DNA binding site 1538009394 active site 1538009395 catalytic site; other site 1538009396 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 1538009397 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 1538009398 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 1538009399 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 1538009400 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538009401 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...; Region: Sigma70_r4; cd06171 1538009402 DNA binding residues 1538009403 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1538009404 DNA binding residues 1538009405 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 1538009406 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 1538009407 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 1538009408 sequence-specific DNA binding site; other site 1538009409 salt bridge; other site 1538009410 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 1538009411 non-specific DNA binding site; other site 1538009412 salt bridge; other site 1538009413 sequence-specific DNA binding site; other site 1538009414 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 (...; Region: S24_LexA-like; cd06529 1538009415 Catalytic site; other site 1538009416 integron integrase; Region: integrase_gron; TIGR02249 1538009417 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1538009418 Phage integrase family; Region: Phage_integrase; pfam00589 1538009419 Int/Topo IB signature motif; other site 1538009420 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1538009421 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1538009422 active site 1538009423 metal-binding site 1538009424 homotetramer interface; other site 1538009425 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 Ham1-...; Region: HAM1; cd00515 1538009426 active site 1538009427 dimerization interface; other site 1538009428 ribonuclease PH; Reviewed; Region: rph; PRK00173 1538009429 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 1538009430 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 1538009431 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 1538009432 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 1538009433 dimerization interface; other site 1538009434 putative ATP binding site; other site 1538009435 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1538009436 peptide binding site; other site 1538009437 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1538009438 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1538009439 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1538009440 GatB domain; Region: GatB_Yqey; cl11497 1538009441 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 1538009442 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1538009443 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 1538009444 Peptidase C26; Region: Peptidase_C26; pfam07722 1538009445 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1538009446 catalytic triad; other site 1538009447 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1538009448 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...; Region: AAA; cd00009 1538009449 Walker A motif; other site 1538009450 ATP binding site; other site 1538009451 Walker B motif; other site 1538009452 arginine finger; other site 1538009453 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1538009454 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 1538009455 nucleotide binding pocket; other site 1538009456 K-X-D-G motif; other site 1538009457 catalytic site; other site 1538009458 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1538009459 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1538009460 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 1538009461 Dimer interface; other site 1538009462 BRCT sequence motif; other site 1538009463 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1538009464 UvrD/REP helicase; Region: UvrD-helicase; cl14126 1538009465 Trp repressor protein; Region: Trp_repressor; cl01121 1538009466 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1538009467 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 1538009468 RNA binding surface; other site 1538009469 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 1538009470 active site 1538009471 uracil binding; other site 1538009472 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 catalyze...; Region: LT_GEWL; cd00254 1538009473 N-acetyl-D-glucosamine binding site; other site 1538009474 catalytic residue; other site 1538009475 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 1538009476 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1538009477 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1538009478 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1538009479 B3/4 domain; Region: B3_4; cl11458 1538009480 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 1538009481 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1538009482 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1538009483 Transposase; Region: Transposase_9; pfam01548 1538009484 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1538009485 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 1538009486 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1538009487 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 1538009488 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1538009489 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538009490 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1538009491 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 1538009492 active site 1538009493 dimer interface; other site 1538009494 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 1538009495 dimer interface; other site 1538009496 active site 1538009497 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538009498 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538009499 G4 box; other site 1538009500 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 1538009501 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538009502 putative substrate translocation pore; other site 1538009503 GMP synthase; Reviewed; Region: guaA; PRK00074 1538009504 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1538009505 AMP/PPi binding site; other site 1538009506 candidate oxyanion hole; other site 1538009507 catalytic triad; other site 1538009508 potential glutamine specificity residues; other site 1538009509 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 1538009510 ATP Binding subdomain; other site 1538009511 Ligand Binding sites; other site 1538009512 Dimerization subdomain; other site 1538009513 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1538009514 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; cl09108 1538009515 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 key...; Region: CBS_pair_IMPDH; cd04601 1538009516 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 the...; Region: IMPDH; cd00381 1538009517 active site 1538009518 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1538009519 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 1538009520 ring oligomerisation interface; other site 1538009521 ATP/Mg binding site; other site 1538009522 stacking interactions; other site 1538009523 hinge regions; other site 1538009524 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...; Region: cpn10; cd00320 1538009525 oligomerisation interface; other site 1538009526 mobile loop; other site 1538009527 roof hairpin; other site 1538009528 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1538009529 ferredoxin; Validated; Region: PRK07118 1538009530 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1538009531 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 1538009532 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1538009533 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 1538009534 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1538009535 minor groove reading motif; other site 1538009536 helix-hairpin-helix signature motif; other site 1538009537 substrate binding pocket; other site 1538009538 active site 1538009539 putative bifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta; Provisional; Region: PRK12778 1538009540 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 1538009541 FAD binding pocket; other site 1538009542 FAD binding motif; other site 1538009543 phosphate binding motif; other site 1538009544 beta-alpha-beta structure motif; other site 1538009545 NAD binding pocket; other site 1538009546 Iron coordination center; other site 1538009547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538009548 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1538009549 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1538009550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538009551 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1538009552 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538009553 Walker A/P-loop; other site 1538009554 ATP binding site; other site 1538009555 Q-loop/lid; other site 1538009556 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 1538009557 ABC transporter signature motif; other site 1538009558 Walker B; other site 1538009559 D-loop; other site 1538009560 H-loop/switch region; other site 1538009561 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 1538009562 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1538009563 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1538009564 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538009565 Walker A/P-loop; other site 1538009566 ATP binding site; other site 1538009567 Q-loop/lid; other site 1538009568 ABC transporter signature motif; other site 1538009569 Walker B; other site 1538009570 D-loop; other site 1538009571 H-loop/switch region; other site 1538009572 dihydroorotase; Validated; Region: pyrC; PRK09357 1538009573 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...; Region: metallo-dependent_hydrolases; cl00281 1538009574 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 1538009575 active site 1538009576 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1538009577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538009578 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1538009579 Domain of unknown function DUF77; Region: DUF77; cl00307 1538009580 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1538009581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538009582 active site 1538009583 phosphorylation site 1538009584 intermolecular recognition site; other site 1538009585 dimerization interface; other site 1538009586 LytTr DNA-binding domain; Region: LytTR; cl04498 1538009587 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1538009588 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 1538009589 Histidine kinase; Region: His_kinase; pfam06580 1538009590 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538009591 ATP binding site; other site 1538009592 Mg2+ binding site; other site 1538009593 G-X-G motif; other site 1538009594 Carbon starvation protein CstA; Region: CstA; cl00856 1538009595 Carbon starvation protein CstA; Region: CstA; cl00856 1538009596 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 1538009597 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1538009598 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1538009599 Peptidase M16C associated; Region: M16C_assoc; pfam08367 1538009600 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1538009601 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1538009602 active site 1538009603 nucleophile elbow; other site 1538009604 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1538009605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538009606 pyruvate carboxylase; Reviewed; Region: PRK12999 1538009607 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1538009608 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 1538009609 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1538009610 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1538009611 active site 1538009612 catalytic residues; other site 1538009613 metal-binding site 1538009614 homodimer binding site; other site 1538009615 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 1538009616 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 1538009617 carboxyltransferase (CT) interaction site; other site 1538009618 biotinylation site; other site 1538009619 putative DNA-binding/iron metalloprotein/AP endonuclease; Reviewed; Region: PRK09604 1538009620 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 1538009621 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1538009622 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 1538009623 Walker A/P-loop; other site 1538009624 ATP binding site; other site 1538009625 Q-loop/lid; other site 1538009626 ABC transporter signature motif; other site 1538009627 Walker B; other site 1538009628 D-loop; other site 1538009629 H-loop/switch region; other site 1538009630 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200; cl01717 1538009631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200; cl01717 1538009632 Endodeoxyribonuclease RusA; Region: RusA; cl01885 1538009633 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1538009634 Protein of unknown function (DUF1667); Region: DUF1667; cl01591 1538009635 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1538009636 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1538009637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538009638 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 1538009639 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 1538009640 Predicted RNA-binding protein; Region: RNA_bind_2; cl00662 1538009641 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1538009642 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 1538009643 catalytic loop; other site 1538009644 iron binding site; other site 1538009645 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 L-...; Region: GCS_H; cd06848 1538009646 lipoyl attachment site; other site 1538009647 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 1538009648 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 alpha-; Region: HCP_like; cl00255 1538009649 ACS interaction site; other site 1538009650 CODH interaction site; other site 1538009651 metal cluster binding site; other site 1538009652 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 1538009653 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1538009654 substrate binding pocket; other site 1538009655 dimer interface; other site 1538009656 inhibitor binding site; inhibition site 1538009657 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 1538009658 Putative Fe-S cluster; Region: FeS; pfam04060 1538009659 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 1538009660 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 1538009661 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538009662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538009663 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 1538009664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538009665 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 1538009666 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...; Region: MTHFR; cd00537 1538009667 FAD binding site; other site 1538009668 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 1538009669 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 1538009670 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1538009671 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1538009672 homodimer interface; other site 1538009673 NADP binding site; other site 1538009674 substrate binding site; other site 1538009675 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 1538009676 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1538009677 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 1538009678 Potassium binding sites; other site 1538009679 Cesium cation binding sites; other site 1538009680 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 1538009681 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 1538009682 P-loop; other site 1538009683 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538009684 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 1538009685 ACS interaction site; other site 1538009686 CODH interaction site; other site 1538009687 cubane metal cluster (B-cluster); other site 1538009688 Ni-Fe-S cluster (C-cluster); other site 1538009689 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 1538009690 Ligand Binding Site; other site 1538009691 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 1538009692 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...; Region: Sigma70_r4; cl01055 1538009693 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 1538009694 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1538009695 metal binding site 2; metal-binding site 1538009696 putative DNA binding helix; other site 1538009697 metal binding site 1; metal-binding site 1538009698 dimer interface; other site 1538009699 structural Zn2+ binding site; other site 1538009700 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 1538009701 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 1538009702 P loop nucleotide binding; other site 1538009703 Ferredoxin [Energy production and conversion]; Region: COG1146 1538009704 switch II; other site 1538009705 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 1538009706 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538009707 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 1538009708 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538009709 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1538009710 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 1538009711 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1538009712 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538009713 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 1538009714 putative dimerization interface; other site 1538009715 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 1538009716 Flavin Reductases; Region: FlaRed; cl00801 1538009717 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 1538009718 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 1538009719 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538009720 G3 box; other site 1538009721 Switch II region; other site 1538009722 G4 box; other site 1538009723 Cupin domain; Region: Cupin_2; cl09118 1538009724 Flavin Reductases; Region: FlaRed; cl00801 1538009725 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 1538009726 Predicted permease; Region: DUF318; cl00487 1538009727 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 1538009728 metal-binding site 1538009729 Predicted permease; Region: DUF318; cl00487 1538009730 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 1538009731 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538009732 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538009733 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 1538009734 putative dimerization interface; other site 1538009735 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 1538009736 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1538009737 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1538009738 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 1538009739 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1538009740 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538009741 Walker A/P-loop; other site 1538009742 ATP binding site; other site 1538009743 Q-loop/lid; other site 1538009744 ABC transporter signature motif; other site 1538009745 Walker B; other site 1538009746 D-loop; other site 1538009747 H-loop/switch region; other site 1538009748 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; Region: NifX_NifB; cl00252 1538009749 Domain of unknown function (DUF364); Region: DUF364; cl00885 1538009750 Protein of unknown function (DUF1847); Region: DUF1847; cl02037 1538009751 Protein of unknown function (DUF421); Region: DUF421; cl00990 1538009752 Protein of unknown function (DUF421); Region: DUF421; cl00990 1538009753 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 1538009754 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1538009755 putative metal binding site; other site 1538009756 MOSC domain; Region: MOSC; pfam03473 1538009757 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1538009758 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 1538009759 putative metal binding site; other site 1538009760 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1538009761 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1538009762 Walker A/P-loop; other site 1538009763 ATP binding site; other site 1538009764 Q-loop/lid; other site 1538009765 ABC transporter signature motif; other site 1538009766 Walker B; other site 1538009767 D-loop; other site 1538009768 H-loop/switch region; other site 1538009769 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...; Region: TM_ABC_iron-siderophores_like; cd06550 1538009770 ABC-ATPase subunit interface; other site 1538009771 dimer interface; other site 1538009772 putative PBP binding regions; other site 1538009773 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 1538009774 S-adenosylmethionine binding site; other site 1538009775 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 1538009776 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 1538009777 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1538009778 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 1538009779 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 1538009780 dimerization interface; other site 1538009781 active site 1538009782 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538009783 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1538009784 Walker A/P-loop; other site 1538009785 ATP binding site; other site 1538009786 Q-loop/lid; other site 1538009787 ABC transporter signature motif; other site 1538009788 Walker B; other site 1538009789 D-loop; other site 1538009790 H-loop/switch region; other site 1538009791 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 1538009792 dimer interface; other site 1538009793 conserved gate region; other site 1538009794 putative PBP binding loops; other site 1538009795 ABC-ATPase subunit interface; other site 1538009796 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538009797 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1538009798 Zn2+ binding site; other site 1538009799 Mg2+ binding site; other site 1538009800 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 1538009801 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...; Region: TroA-like; cl00262 1538009802 intersubunit interface; other site 1538009803 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1538009804 Zn2+ binding site; other site 1538009805 Mg2+ binding site; other site 1538009806 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1538009807 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1538009808 Zn2+ binding site; other site 1538009809 Mg2+ binding site; other site 1538009810 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1538009811 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 1538009812 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1538009813 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1538009814 Coenzyme A binding pocket; other site 1538009815 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 1538009816 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1538009817 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1538009818 active site 1538009819 HIGH motif; other site 1538009820 dimer interface; other site 1538009821 KMSKS motif; other site 1538009822 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 1538009823 RNA binding surface; other site 1538009824 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1538009825 Divergent AAA domain; Region: AAA_4; pfam04326 1538009826 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 1538009827 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1538009828 active site 1538009829 sugar phosphatase; Provisional; Region: PRK10513 1538009830 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 1538009831 active site 1538009832 motif I; other site 1538009833 motif II; other site 1538009834 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; cl11391 1538009835 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1538009836 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 1538009837 G1 box; other site 1538009838 putative GEF interaction site; other site 1538009839 GTP/Mg2+ binding site; other site 1538009840 Switch I region; other site 1538009841 G2 box; other site 1538009842 G3 box; other site 1538009843 Switch II region; other site 1538009844 G4 box; other site 1538009845 G5 box; other site 1538009846 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1538009847 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1538009848 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1538009849 active site 1538009850 HIGH motif; other site 1538009851 dimer interface; other site 1538009852 KMSKS motif; other site 1538009853 Uncharacterized protein conserved in bacteria (DUF2329); Region: DUF2329; pfam10091 1538009854 Putative carbohydrate binding domain; Region: CBM_X; pfam06204 1538009855 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 1538009856 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 1538009857 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1538009858 Putative carbohydrate binding domain; Region: CBM_X; pfam06204 1538009859 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 1538009860 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 1538009861 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1538009862 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1538009863 active site 1538009864 pyridoxal 5'-phosphate (PLP) binding site; other site 1538009865 substrate binding site; other site 1538009866 catalytic residues; other site 1538009867 dimer interface; other site 1538009868 aspartate kinase; Reviewed; Region: PRK06635 1538009869 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1538009870 putative nucleotide binding site; other site 1538009871 putative catalytic residues; other site 1538009872 putative Mg ion binding site; other site 1538009873 putative aspartate binding site; other site 1538009874 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1538009875 putative allosteric regulatory site; other site 1538009876 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1538009877 putative allosteric regulatory residue; other site 1538009878 biotin synthase; Provisional; Region: PRK07094 1538009879 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 1538009880 FeS/SAM binding site; other site 1538009881 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 1538009882 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1538009883 UvrD/REP helicase; Region: UvrD-helicase; cl14126 1538009884 FtsH Extracellular; Region: FtsH_ext; pfam06480 1538009885 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1538009886 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...; Region: AAA; cd00009 1538009887 Walker A motif; other site 1538009888 ATP binding site; other site 1538009889 Walker B motif; other site 1538009890 arginine finger; other site 1538009891 Peptidase family M41; Region: Peptidase_M41; pfam01434 1538009892 prolyl-tRNA synthetase; Provisional; Region: PRK08661 1538009893 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 formation...; Region: ProRS_core_arch_euk; cd00778 1538009894 dimer interface; other site 1538009895 motif 1; other site 1538009896 active site 1538009897 motif 2; other site 1538009898 motif 3; other site 1538009899 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity...; Region: ProRS_anticodon_zinc; cd00862 1538009900 anticodon binding site; other site 1538009901 zinc-binding site; other site 1538009902 Glycerate kinase family; Region: Gly_kinase; cl00841 1538009903 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 1538009904 d-galactonate transporter; Region: 2A0114; TIGR00893 1538009905 putative substrate translocation pore; other site 1538009906 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1538009907 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 1538009908 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 1538009909 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1538009910 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 1538009911 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr (; Region: PTPc; cl00053 1538009912 active site 1538009913 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 1538009914 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1538009915 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1538009916 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1538009917 putative NAD(P) binding site; other site 1538009918 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1538009919 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538009920 active site 1538009921 phosphorylation site 1538009922 intermolecular recognition site; other site 1538009923 dimerization interface; other site 1538009924 sensory histidine kinase DcuS; Provisional; Region: PRK11086 1538009925 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538009926 ATP binding site; other site 1538009927 Mg2+ binding site; other site 1538009928 G-X-G motif; other site 1538009929 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1538009930 B3/4 domain; Region: B3_4; cl11458 1538009931 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 1538009932 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1538009933 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1538009934 Transposase; Region: Transposase_9; pfam01548 1538009935 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1538009936 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 1538009937 non-specific DNA binding site; other site 1538009938 salt bridge; other site 1538009939 sequence-specific DNA binding site; other site 1538009940 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538009941 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538009942 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538009943 dimerization interface; other site 1538009944 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1538009945 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1538009946 catalytic Zn binding site; other site 1538009947 NAD binding site; other site 1538009948 structural Zn binding site; other site 1538009949 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1538009950 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as...; Region: OYE_like_FMN_family; cd02803 1538009951 active site 1538009952 FMN binding site; other site 1538009953 substrate binding site; other site 1538009954 putative catalytic residue; other site 1538009955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538009956 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1538009957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538009958 phosphoenolpyruvate synthase; Validated; Region: PRK06241 1538009959 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1538009960 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1538009961 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538009962 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538009963 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538009964 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538009965 Walker A/P-loop; other site 1538009966 ATP binding site; other site 1538009967 Q-loop/lid; other site 1538009968 ABC transporter signature motif; other site 1538009969 Walker B; other site 1538009970 D-loop; other site 1538009971 H-loop/switch region; other site 1538009972 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1538009973 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538009974 ATP binding site; other site 1538009975 Mg2+ binding site; other site 1538009976 G-X-G motif; other site 1538009977 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538009978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538009979 active site 1538009980 phosphorylation site 1538009981 intermolecular recognition site; other site 1538009982 dimerization interface; other site 1538009983 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...; Region: trans_reg_C; cd00383 1538009984 DNA binding site 1538009985 Beta-lactamase; Region: Beta-lactamase; cl01009 1538009986 Beta-lactamase; Region: Beta-lactamase; cl01009 1538009987 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538009988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538009989 active site 1538009990 phosphorylation site 1538009991 intermolecular recognition site; other site 1538009992 dimerization interface; other site 1538009993 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...; Region: trans_reg_C; cd00383 1538009994 DNA binding site 1538009995 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1538009996 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538009997 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 trans-...; Region: HisKA; cd00082 1538009998 dimer interface; other site 1538009999 phosphorylation site 1538010000 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538010001 ATP binding site; other site 1538010002 Mg2+ binding site; other site 1538010003 G-X-G motif; other site 1538010004 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases...; Region: sialate_O-acetylesterase_like2; cd01828 1538010005 active site 1538010006 catalytic triad; other site 1538010007 oxyanion hole; other site 1538010008 Peptidase family M48; Region: Peptidase_M48; cl12018 1538010009 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538010010 CHASE3 domain; Region: CHASE3; cl05000 1538010011 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 connected by an extended linker. The...; Region: HAMP; cl01054 1538010012 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1538010013 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538010014 potential frameshift: common BLAST hit: gi|150019802|ref|YP_001312056.1| transposase 1538010015 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1538010016 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538010017 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1538010018 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...; Region: DUS_like_FMN; cd02801 1538010019 FMN binding site; other site 1538010020 active site 1538010021 catalytic residues; other site 1538010022 substrate binding site; other site 1538010023 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 1538010024 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1538010025 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 1538010026 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 1538010027 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1538010028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1538010029 metal-binding site 1538010030 active site 1538010031 I-site; other site 1538010032 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1538010033 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538010034 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 1538010035 GtrA-like protein; Region: GtrA; cl00971 1538010036 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1538010037 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1538010038 Ligand binding site; other site 1538010039 Putative Catalytic site; other site 1538010040 DXD motif; other site 1538010041 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 1538010042 acetolactate synthase; Reviewed; Region: PRK08322 1538010043 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1538010044 PYR/PP interface; other site 1538010045 dimer interface; other site 1538010046 TPP binding site; other site 1538010047 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1538010048 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1538010049 TPP-binding site; other site 1538010050 dimer interface; other site 1538010051 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1538010052 active site 1538010053 NAD binding site; other site 1538010054 metal-binding site 1538010055 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538010056 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538010057 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538010058 dimerization interface; other site 1538010059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538010060 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1538010061 ethanolamine permease; Region: 2A0305; TIGR00908 1538010062 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538010063 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1538010064 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 1538010065 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538010066 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1538010067 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538010068 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1538010069 Coenzyme A binding pocket; other site 1538010070 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 1538010071 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1538010072 Zn2+ binding site; other site 1538010073 Mg2+ binding site; other site 1538010074 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1538010075 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 1538010076 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538010077 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538010078 SmpB protein; Region: SmpB; cl00482 1538010079 ribonuclease R; Region: RNase_R; TIGR02063 1538010080 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 1538010081 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 1538010082 RNB domain; Region: RNB; pfam00773 1538010083 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 1538010084 RNA binding site; other site 1538010085 Preprotein translocase SecG subunit; Region: SecG; cl09123 1538010086 phosphopyruvate hydratase; Provisional; Region: eno; PRK00077 1538010087 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 1538010088 dimer interface; other site 1538010089 metal-binding site 1538010090 substrate binding pocket; other site 1538010091 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1538010092 Sulfatase; Region: Sulfatase; cl10460 1538010093 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 1538010094 substrate binding site; other site 1538010095 dimer interface; other site 1538010096 catalytic triad; other site 1538010097 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 1538010098 substrate binding site; other site 1538010099 hinge regions; other site 1538010100 ADP binding site; other site 1538010101 catalytic site; other site 1538010102 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl12058 1538010103 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1538010104 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1538010105 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1538010106 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1538010107 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1538010108 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1538010109 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1538010110 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1538010111 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 1538010112 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1538010113 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1538010114 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 1538010115 active site 1538010116 metal-binding site 1538010117 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl01869 1538010118 EamA-like transporter family; Region: EamA; cl01037 1538010119 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1538010120 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1538010121 VanW like protein; Region: VanW; pfam04294 1538010122 competence damage-inducible protein A; Provisional; Region: PRK00549 1538010123 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1538010124 putative MPT binding site; other site 1538010125 Competence-damaged protein; Region: CinA; cl00666 1538010126 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1538010127 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1538010128 minor groove reading motif; other site 1538010129 helix-hairpin-helix signature motif; other site 1538010130 substrate binding pocket; other site 1538010131 active site 1538010132 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1538010133 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1538010134 putative acyl-acceptor binding pocket; other site 1538010135 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1538010136 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1538010137 serine O-acetyltransferase; Region: cysE; TIGR01172 1538010138 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 L-...; Region: LbH_SAT; cd03354 1538010139 trimer interface; other site 1538010140 active site 1538010141 substrate binding site; other site 1538010142 CoA binding site; other site 1538010143 cysteine synthases; Region: cysKM; TIGR01136 1538010144 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 1538010145 dimer interface; other site 1538010146 pyridoxal 5'-phosphate binding site; other site 1538010147 catalytic residue; other site 1538010148 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 1538010149 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1538010150 Rubredoxin [Energy production and conversion]; Region: COG1773 1538010151 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 ferredoxin-...; Region: rubredoxin_SM; cd00729 1538010152 iron binding site; other site 1538010153 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 1538010154 diiron binding motif; other site 1538010155 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 1538010156 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 1538010157 d-galactonate transporter; Region: 2A0114; TIGR00893 1538010158 putative substrate translocation pore; other site 1538010159 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538010160 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538010161 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538010162 dimerization interface; other site 1538010163 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 1538010164 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 1538010165 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1538010166 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1538010167 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1538010168 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1538010169 Ligand binding site; other site 1538010170 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1538010171 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1538010172 active site 1538010173 CoA-transferase family III; Region: CoA_transf_3; cl00778 1538010174 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1538010175 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1538010176 active site 1538010177 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1538010178 mannose-6-phosphate isomerase; Provisional; Region: PLN03067; cl11740 1538010179 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1538010180 dinuclear metal binding motif; other site 1538010181 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1538010182 isocitrate dehydrogenase; Validated; Region: PRK06451 1538010183 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1538010184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538010185 active site 1538010186 phosphorylation site 1538010187 intermolecular recognition site; other site 1538010188 dimerization interface; other site 1538010189 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...; Region: trans_reg_C; cd00383 1538010190 DNA binding site 1538010191 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1538010192 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1538010193 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1538010194 Ligand Binding Site; other site 1538010195 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 trans-...; Region: HisKA; cd00082 1538010196 phosphorylation site 1538010197 dimer interface; other site 1538010198 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538010199 ATP binding site; other site 1538010200 Mg2+ binding site; other site 1538010201 G-X-G motif; other site 1538010202 K+-transporting ATPase, c chain; Region: KdpC; cl00944 1538010203 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1538010204 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1538010205 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; cl11391 1538010206 K+-transporting ATPase, A chain [Inorganic ion transport and metabolism]; Region: KdpA; cl00903 1538010207 Potassium-transporting ATPase A subunit; Region: KdpA; pfam03814 1538010208 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1538010209 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1538010210 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 1538010211 active site 1538010212 multimer interface; other site 1538010213 imidazole glycerol phosphate synthase subunit hisH; Provisional; Region: hisH; CHL00188 1538010214 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1538010215 predicted active site; other site 1538010216 catalytic triad; other site 1538010217 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 1538010218 TM-ABC transporter signature motif; other site 1538010219 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 1538010220 TM-ABC transporter signature motif; other site 1538010221 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1538010222 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 1538010223 Walker A/P-loop; other site 1538010224 ATP binding site; other site 1538010225 Q-loop/lid; other site 1538010226 ABC transporter signature motif; other site 1538010227 Walker B; other site 1538010228 D-loop; other site 1538010229 H-loop/switch region; other site 1538010230 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 1538010231 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1538010232 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1538010233 putative ligand binding site; other site 1538010234 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea, which are member of the MipB/TalC subfamily of class I aldolases. FSA catalyze an aldol cleavage of fructose 6-phosphate and do not utilize fructose, fructose 1-...; Region: Transaldolase_FSA; cd00956 1538010235 active site 1538010236 intersubunit interactions; other site 1538010237 catalytic residue; other site 1538010238 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 1538010239 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 1538010240 Phosphotransferase enzyme family; Region: APH; pfam01636 1538010241 active site 1538010242 ATP binding site; other site 1538010243 substrate binding site; other site 1538010244 dimer interface; other site 1538010245 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1538010246 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 1538010247 putative active site; other site 1538010248 metal-binding site 1538010249 Histidine kinase; Region: His_kinase; pfam06580 1538010250 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538010251 ATP binding site; other site 1538010252 Mg2+ binding site; other site 1538010253 G-X-G motif; other site 1538010254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538010255 active site 1538010256 phosphorylation site 1538010257 intermolecular recognition site; other site 1538010258 dimerization interface; other site 1538010259 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538010260 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1538010261 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1538010262 Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 1538010263 Hexamer interface; other site 1538010264 Putative hexagonal pore residue; other site 1538010265 Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 1538010266 Hexamer interface; other site 1538010267 Putative hexagonal pore residue; other site 1538010268 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1538010269 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1538010270 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1538010271 putative catalytic cysteine; other site 1538010272 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1538010273 Hexamer interface; other site 1538010274 Hexagonal pore residue; other site 1538010275 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 1538010276 Cupin domain; Region: Cupin_2; cl09118 1538010277 ethanolamine utilization protein, PduT homolog; Region: eut_PduT; TIGR02526 1538010278 Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 1538010279 putative hexamer interface; other site 1538010280 putative hexagonal pore; other site 1538010281 Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 1538010282 putative hexamer interface; other site 1538010283 putative hexagonal pore; other site 1538010284 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 1538010285 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 1538010286 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 1538010287 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1538010288 Hexamer/Pentamer interface; other site 1538010289 central pore; other site 1538010290 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 1538010291 Hexamer interface; other site 1538010292 Hexagonal pore residue; other site 1538010293 ethanolamine utilization protein EutJ family protein; Region: EutJ; TIGR02529 1538010294 Cell division protein FtsA; Region: FtsA; cl11496 1538010295 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 1538010296 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1538010297 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 alpha-; Region: HCP_like; cl00255 1538010298 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 1538010299 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1538010300 dimer interface; other site 1538010301 active site 1538010302 glycine loop; other site 1538010303 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1538010304 putative catalytic cysteine; other site 1538010305 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1538010306 Hexamer interface; other site 1538010307 Hexagonal pore residue; other site 1538010308 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1538010309 Hexamer interface; other site 1538010310 Hexagonal pore residue; other site 1538010311 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538010312 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 1538010313 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538010314 DNA binding site 1538010315 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 1538010316 pyridoxal 5'-phosphate binding site; other site 1538010317 homodimer interface; other site 1538010318 catalytic residue; other site 1538010319 LysE type translocator; Region: LysE; cl00565 1538010320 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 1538010321 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1538010322 putative substrate translocation pore; other site 1538010323 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1538010324 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1538010325 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1538010326 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 1538010327 putative active site; other site 1538010328 metal-binding site 1538010329 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1538010330 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 trans-...; Region: HisKA; cl00080 1538010331 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538010332 ATP binding site; other site 1538010333 Mg2+ binding site; other site 1538010334 G-X-G motif; other site 1538010335 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538010336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538010337 active site 1538010338 phosphorylation site 1538010339 intermolecular recognition site; other site 1538010340 dimerization interface; other site 1538010341 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...; Region: trans_reg_C; cd00383 1538010342 DNA binding site 1538010343 Predicted permease; Region: FtsX; cl11418 1538010344 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1538010345 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1538010346 Walker A/P-loop; other site 1538010347 ATP binding site; other site 1538010348 Q-loop/lid; other site 1538010349 ABC transporter signature motif; other site 1538010350 Walker B; other site 1538010351 D-loop; other site 1538010352 H-loop/switch region; other site 1538010353 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1538010354 Nuclease-related domain; Region: NERD; pfam08378 1538010355 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1538010356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 1538010357 Walker A/P-loop; other site 1538010358 ATP binding site; other site 1538010359 Q-loop/lid; other site 1538010360 ABC transporter signature motif; other site 1538010361 Walker B; other site 1538010362 D-loop; other site 1538010363 H-loop/switch region; other site 1538010364 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 1538010365 Mor transcription activator family; Region: Mor; cl02360 1538010366 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1538010367 DNA binding residues 1538010368 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1538010369 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1538010370 DNA binding residues 1538010371 Predicted aminopeptidase, Iap family [General function prediction only]; Region: COG4882 1538010372 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538010373 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1538010374 DNA binding residues 1538010375 drug binding residues; other site 1538010376 dimer interface; other site 1538010377 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 1538010378 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1538010379 MatE; Region: MatE; pfam01554 1538010380 MatE; Region: MatE; pfam01554 1538010381 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 1538010382 non-specific DNA binding site; other site 1538010383 salt bridge; other site 1538010384 sequence-specific DNA binding site; other site 1538010385 Flavoprotein; Region: Flavoprotein; cl08021 1538010386 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 1538010387 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1538010388 active site 1538010389 metal-binding site 1538010390 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538010391 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1538010392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538010393 putative oxidoreductase FixC; Provisional; Region: PRK10157 1538010394 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 alpha-; Region: HCP_like; cl00255 1538010395 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1538010396 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1538010397 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1538010398 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1538010399 Ligand binding site; other site 1538010400 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 1538010401 metal-binding site 1538010402 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 1538010403 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 1538010404 OsmC-like protein; Region: OsmC; cl00767 1538010405 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 1538010406 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 trans-...; Region: HisKA; cd00082 1538010407 dimer interface; other site 1538010408 phosphorylation site 1538010409 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538010410 ATP binding site; other site 1538010411 Mg2+ binding site; other site 1538010412 G-X-G motif; other site 1538010413 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538010414 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538010415 active site 1538010416 phosphorylation site 1538010417 intermolecular recognition site; other site 1538010418 dimerization interface; other site 1538010419 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...; Region: trans_reg_C; cd00383 1538010420 DNA binding site 1538010421 UbiA prenyltransferase family; Region: UbiA; cl00337 1538010422 CAAX amino terminal protease family; Region: Abi; cl00558 1538010423 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1538010424 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 1538010425 S-adenosylmethionine binding site; other site 1538010426 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1538010427 substrate binding pocket; other site 1538010428 chain length determination region; other site 1538010429 substrate-Mg2+ binding site; other site 1538010430 catalytic residues; other site 1538010431 aspartate-rich region 1; other site 1538010432 active site lid residues 1538010433 aspartate-rich region 2; other site 1538010434 FixH; Region: FixH; cl01254 1538010435 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1538010436 UPF0126 domain; Region: UPF0126; pfam03458 1538010437 UPF0126 domain; Region: UPF0126; pfam03458 1538010438 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1538010439 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; cl09110 1538010440 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; cl09110 1538010441 threonine synthase; Validated; Region: PRK06260 1538010442 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)...; Region: Trp-synth-beta_II; cl00342 1538010443 pyridoxal 5'-phosphate binding pocket; other site 1538010444 catalytic residue; other site 1538010445 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 1538010446 homotrimer interaction site; other site 1538010447 putative active site; other site 1538010448 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538010449 alanine racemase; Reviewed; Region: alr; PRK00053 1538010450 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1538010451 active site 1538010452 pyridoxal 5'-phosphate (PLP) binding site; other site 1538010453 dimer interface; other site 1538010454 substrate binding site; other site 1538010455 catalytic residues; other site 1538010456 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 1538010457 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1538010458 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 1538010459 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...; Region: AAA; cd00009 1538010460 Walker A motif; other site 1538010461 ATP binding site; other site 1538010462 Walker B motif; other site 1538010463 arginine finger; other site 1538010464 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538010465 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1538010466 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...; Region: GFAT; cd00714 1538010467 glutaminase active site; other site 1538010468 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 1538010469 dimer interface; other site 1538010470 active site 1538010471 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 1538010472 dimer interface; other site 1538010473 active site 1538010474 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1538010475 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of UDP-N-...; Region: GlmM; cd05802 1538010476 active site 1538010477 substrate binding site; other site 1538010478 metal-binding site 1538010479 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1538010480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538010481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1538010482 YbbR-like protein; Region: YbbR; pfam07949 1538010483 YbbR-like protein; Region: YbbR; pfam07949 1538010484 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1538010485 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1538010486 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1538010487 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1538010488 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 1538010489 catalytic residues; other site 1538010490 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1538010491 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1538010492 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 1538010493 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1538010494 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 1538010495 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 1538010496 TPR motif; other site 1538010497 binding surface 1538010498 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 1538010499 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1538010500 active site 1538010501 nucleotide binding site; other site 1538010502 HIGH motif; other site 1538010503 KMSKS motif; other site 1538010504 citrate lyase, alpha subunit; Region: citF; TIGR01584 1538010505 Coenzyme A transferase; Region: CoA_trans; cl00773 1538010506 Coenzyme A transferase; Region: CoA_trans; cl00773 1538010507 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 1538010508 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 1538010509 Fumarase C-terminus; Region: Fumerase_C; cl00795 1538010510 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 1538010511 methylaspartate ammonia-lyase; Region: B_methylAsp_ase; TIGR01502 1538010512 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 1538010513 dimer interface; other site 1538010514 active site 1538010515 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 L-threo-; Region: Glm_e; cd00245 1538010516 substrate binding site; other site 1538010517 B12 cofactor binding site; other site 1538010518 heterodimer (sigma-epsilon) interface; other site 1538010519 homodimer (epsilon-epsilon) interface; other site 1538010520 conserved hypothetical protein; Region: glmL_fam; TIGR01319 1538010521 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 1538010522 B12 binding site; other site 1538010523 heterodimer interface; other site 1538010524 cobalt ligand; other site 1538010525 Predicted transcriptional regulators [Transcription]; Region: COG1725 1538010526 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1538010527 DNA binding site 1538010528 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538010529 Amino acid permease; Region: AA_permease; pfam00324 1538010530 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1538010531 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...; Region: AAA; cd00009 1538010532 Walker A motif; other site 1538010533 ATP binding site; other site 1538010534 Walker B motif; other site 1538010535 arginine finger; other site 1538010536 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1538010537 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1538010538 catalytic triad; other site 1538010539 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 1538010540 active site 1538010541 metal-binding site 1538010542 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 1538010543 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 1538010544 23S rRNA interface; other site 1538010545 L3 interface; other site 1538010546 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1538010547 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 1538010548 dimerization interface 3.5A; other site 1538010549 active site 1538010550 Cobalt transport protein; Region: CbiQ; cl00463 1538010551 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 1538010552 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 1538010553 Walker A/P-loop; other site 1538010554 ATP binding site; other site 1538010555 Q-loop/lid; other site 1538010556 ABC transporter signature motif; other site 1538010557 Walker B; other site 1538010558 D-loop; other site 1538010559 H-loop/switch region; other site 1538010560 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 1538010561 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 1538010562 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 1538010563 Walker A/P-loop; other site 1538010564 ATP binding site; other site 1538010565 Q-loop/lid; other site 1538010566 ABC transporter signature motif; other site 1538010567 Walker B; other site 1538010568 D-loop; other site 1538010569 H-loop/switch region; other site 1538010570 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 1538010571 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 1538010572 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1538010573 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1538010574 alphaNTD - beta interaction site; other site 1538010575 alphaNTD homodimer interface; other site 1538010576 alphaNTD - beta' interaction site; other site 1538010577 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 1538010578 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1538010579 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1538010580 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 1538010581 RNA binding surface; other site 1538010582 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 1538010583 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 1538010584 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1538010585 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 1538010586 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 1538010587 rRNA binding site; other site 1538010588 predicted 30S ribosome binding site; other site 1538010589 adenylate kinase; Reviewed; Region: adk; PRK00279 1538010590 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 1538010591 AMP-binding site; other site 1538010592 ATP-AMP (Ap5A)-binding site; other site 1538010593 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1538010594 eubacterial secY protein; Region: SecY; pfam00344 1538010595 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 1538010596 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...; Region: Ribosomal_L30; cd01658 1538010597 23S rRNA binding site; other site 1538010598 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1538010599 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1538010600 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1538010601 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 1538010602 23S rRNA interface; other site 1538010603 5S rRNA interface; other site 1538010604 L27 interface; other site 1538010605 L5 interface; other site 1538010606 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1538010607 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1538010608 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1538010609 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 1538010610 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 1538010611 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1538010612 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1538010613 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1538010614 KOW motif; Region: KOW; cl00354 1538010615 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 1538010616 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 1538010617 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...; Region: Ribosomal_L29_HIP; cd00427 1538010618 23S rRNA interface; other site 1538010619 putative translocon interaction site; other site 1538010620 signal recognition particle (SRP54) interaction site; other site 1538010621 L23 interface; other site 1538010622 trigger factor interaction site; other site 1538010623 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 1538010624 23S rRNA interface; other site 1538010625 5S rRNA interface; other site 1538010626 putative antibiotic binding site; other site 1538010627 L25 interface; other site 1538010628 L27 interface; other site 1538010629 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1538010630 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...; Region: 30S_S3_KH; cd02412 1538010631 G-X-X-G motif; other site 1538010632 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1538010633 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 1538010634 putative translocon binding site; other site 1538010635 protein-rRNA interface; other site 1538010636 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 1538010637 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1538010638 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1538010639 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1538010640 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 1538010641 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 1538010642 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 1538010643 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 1538010644 elongation factor Tu; Reviewed; Region: PRK00049 1538010645 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 1538010646 G1 box; other site 1538010647 GEF interaction site; other site 1538010648 GTP/Mg2+ binding site; other site 1538010649 Switch I region; other site 1538010650 G2 box; other site 1538010651 G3 box; other site 1538010652 Switch II region; other site 1538010653 G4 box; other site 1538010654 G5 box; other site 1538010655 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 1538010656 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 1538010657 Antibiotic Binding Site; other site 1538010658 elongation factor G; Reviewed; Region: PRK00007 1538010659 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 1538010660 G1 box; other site 1538010661 putative GEF interaction site; other site 1538010662 GTP/Mg2+ binding site; other site 1538010663 Switch I region; other site 1538010664 G2 box; other site 1538010665 G3 box; other site 1538010666 Switch II region; other site 1538010667 G4 box; other site 1538010668 G5 box; other site 1538010669 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...; Region: EFG_mtEFG_II; cd04088 1538010670 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...; Region: EFG_mtEFG1_IV; cd01434 1538010671 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...; Region: EFG_mtEFG_C; cd03713 1538010672 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 1538010673 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 1538010674 S17 interaction site; other site 1538010675 S8 interaction site; other site 1538010676 16S rRNA interaction site; other site 1538010677 streptomycin interaction site; other site 1538010678 23S rRNA interaction site; other site 1538010679 aminoacyl-tRNA interaction site (A-site); other site 1538010680 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1538010681 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1538010682 DNA-directed RNA polymerase, gamma subunit; Region: rpoC1_cyan; TIGR02387 1538010683 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 1538010684 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1538010685 RNA polymerase beta'' subunit; Reviewed; Region: rpoC2; CHL00117 1538010686 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1538010687 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1538010688 Rpb1 (beta') - Rpb6 (omega) interaction site; other site 1538010689 G-loop; other site 1538010690 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 1538010691 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1538010692 DNA binding site 1538010693 Rpb1 (beta') - Rpb2 (beta) interaction site; other site 1538010694 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; cl04593 1538010695 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 1538010696 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK01497 1538010697 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 1538010698 RPB1 interaction site; other site 1538010699 RPB10 interaction site; other site 1538010700 RPB11 interaction site; other site 1538010701 RPB3 interaction site; other site 1538010702 RPB12 interaction site; other site 1538010703 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 1538010704 core dimer interface; other site 1538010705 peripheral dimer interface; other site 1538010706 L10 interface; other site 1538010707 L11 interface; other site 1538010708 putative EF-Tu interaction site; other site 1538010709 putative EF-G interaction site; other site 1538010710 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...; Region: Ribosomal_L10; cd05797 1538010711 23S rRNA interface; other site 1538010712 Interface with L7/L12 ribosomal proteins; other site 1538010713 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...; Region: Ribosomal_L1; cd00403 1538010714 mRNA/rRNA interface; other site 1538010715 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1538010716 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 1538010717 23S rRNA interface; other site 1538010718 L7/L12 interface; other site 1538010719 putative thiostrepton binding site; other site 1538010720 L25 interface; other site 1538010721 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1538010722 Transcription termination factor nusG; Region: NusG; cl02766 1538010723 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 1538010724 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 1538010725 elongation factor Tu; Reviewed; Region: PRK00049 1538010726 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 1538010727 G1 box; other site 1538010728 GEF interaction site; other site 1538010729 GTP/Mg2+ binding site; other site 1538010730 Switch I region; other site 1538010731 G2 box; other site 1538010732 G3 box; other site 1538010733 Switch II region; other site 1538010734 G4 box; other site 1538010735 G5 box; other site 1538010736 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 1538010737 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 1538010738 Antibiotic Binding Site; other site 1538010739 RNA polymerase sigma-H factor; Region: spore_sigH; TIGR02859 1538010740 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1538010741 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...; Region: Sigma70_r4; cl01055 1538010742 Protein of unknown function (DUF901); Region: DUF901; cl01491 1538010743 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1538010744 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1538010745 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1538010746 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 post-...; Region: RIBOc; cd00593 1538010747 dimerization interface; other site 1538010748 active site 1538010749 metal-binding site 1538010750 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1538010751 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1538010752 active site 1538010753 HIGH motif; other site 1538010754 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1538010755 KMSKS motif; other site 1538010756 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1538010757 tRNA binding surface; other site 1538010758 anticodon binding site; other site 1538010759 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1538010760 substrate binding site; other site 1538010761 dimer interface; other site 1538010762 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 1538010763 PIN domain; Region: PIN; cl09128 1538010764 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 1538010765 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1538010766 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 1538010767 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 1538010768 DNA repair protein RadA; Provisional; Region: PRK11823 1538010769 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1538010770 Walker A motif/ATP binding site; other site 1538010771 ATP binding site; other site 1538010772 Walker B motif; other site 1538010773 Clp protease ATP binding subunit; Region: clpC; CHL00095 1538010774 Clp amino terminal domain; Region: Clp_N; pfam02861 1538010775 Clp amino terminal domain; Region: Clp_N; pfam02861 1538010776 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...; Region: AAA; cd00009 1538010777 Walker A motif; other site 1538010778 ATP binding site; other site 1538010779 Walker B motif; other site 1538010780 arginine finger; other site 1538010781 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...; Region: AAA; cd00009 1538010782 Walker A motif; other site 1538010783 ATP binding site; other site 1538010784 Walker B motif; other site 1538010785 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1538010786 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 1538010787 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 1538010788 ADP binding site; other site 1538010789 phosphagen binding site; other site 1538010790 substrate specificity loop; other site 1538010791 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 1538010792 UvrB/uvrC motif; Region: UVR; pfam02151 1538010793 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 1538010794 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G_bact; cd04170 1538010795 elongation factor G; Reviewed; Region: PRK12740 1538010796 G1 box; other site 1538010797 putative GEF interaction site; other site 1538010798 GTP/Mg2+ binding site; other site 1538010799 Switch I region; other site 1538010800 G2 box; other site 1538010801 G3 box; other site 1538010802 Switch II region; other site 1538010803 G4 box; other site 1538010804 G5 box; other site 1538010805 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...; Region: EFG_mtEFG_II; cd04088 1538010806 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...; Region: EFG_mtEFG1_IV; cd01434 1538010807 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...; Region: EFG_mtEFG_C; cd03713 1538010808 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 1538010809 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1538010810 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1538010811 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 1538010812 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...; Region: GlyRS-like_core; cd00774 1538010813 active site 1538010814 motif 2; other site 1538010815 motif 3; other site 1538010816 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...; Region: HGTP_anticodon; cl00266 1538010817 anticodon binding site; other site 1538010818 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1538010819 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-...; Region: LysRS_N; cd04322 1538010820 dimer interface; other site 1538010821 putative anticodon binding site; other site 1538010822 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1538010823 motif 1; other site 1538010824 active site 1538010825 motif 2; other site 1538010826 motif 3; other site 1538010827 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1538010828 domain; Region: GreA_GreB_N; pfam03449 1538010829 C-term; Region: GreA_GreB; pfam01272 1538010830 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1538010831 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...; Region: DUS_like_FMN; cd02801 1538010832 FMN binding site; other site 1538010833 active site 1538010834 catalytic residues; other site 1538010835 substrate binding site; other site 1538010836 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 1538010837 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1538010838 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...; Region: AAA; cd00009 1538010839 Walker A motif; other site 1538010840 ATP binding site; other site 1538010841 Walker B motif; other site 1538010842 arginine finger; other site 1538010843 Peptidase family M41; Region: Peptidase_M41; pfam01434 1538010844 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 1538010845 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1538010846 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 1538010847 Ligand Binding Site; other site 1538010848 Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]; Region: PheT; COG0072 1538010849 B3/4 domain; Region: B3_4; cl11458 1538010850 stage II sporulation protein E; Region: spore_II_E; TIGR02865 1538010851 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1538010852 hypothetical protein; Provisional; Region: PRK05807 1538010853 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 1538010854 RNA binding site; other site 1538010855 Septum formation initiator; Region: DivIC; cl11433 1538010856 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 1538010857 YabP family; Region: YabP; cl06766 1538010858 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 1538010859 RNA binding surface; other site 1538010860 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 higher-...; Region: HU_IHF; cd00591 1538010861 IHF dimer interface; other site 1538010862 IHF - DNA interface; other site 1538010863 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 1538010864 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 1538010865 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00737 1538010866 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00737 1538010867 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1538010868 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 1538010869 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 1538010870 stage V sporulation protein T; Region: spore_V_T; TIGR02851 1538010871 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1538010872 PPIC-type PPIASE domain; Region: Rotamase; cl08278 1538010873 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1538010874 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 1538010875 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 1538010876 ATP binding site; other site 1538010877 putative Mg++ binding site; other site 1538010878 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 1538010879 nucleotide binding region; other site 1538010880 ATP-binding site; other site 1538010881 TRCF domain; Region: TRCF; pfam03461 1538010882 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 1538010883 putative active site; other site 1538010884 catalytic residue; other site 1538010885 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1538010886 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 1538010887 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 C-...; Region: PDZ_serine_protease; cd00987 1538010888 protein binding site; other site 1538010889 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 connected by an extended linker. The...; Region: HAMP; cd06225 1538010890 dimerization interface; other site 1538010891 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 trans-...; Region: HisKA; cd00082 1538010892 dimer interface; other site 1538010893 phosphorylation site 1538010894 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1538010895 ATP binding site; other site 1538010896 Mg2+ binding site; other site 1538010897 G-X-G motif; other site 1538010898 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1538010899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 1538010900 active site 1538010901 phosphorylation site 1538010902 intermolecular recognition site; other site 1538010903 dimerization interface; other site 1538010904 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...; Region: trans_reg_C; cd00383 1538010905 DNA binding site 1538010906 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 1538010907 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 1538010908 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1538010909 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1538010910 Substrate binding site; other site 1538010911 Mg++ binding site; other site 1538010912 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1538010913 active site 1538010914 substrate binding site; other site 1538010915 CoA binding site; other site 1538010916 SpoVG; Region: SpoVG; cl00915 1538010917 pur operon repressor; Provisional; Region: PRK09213 1538010918 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1538010919 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 1538010920 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1538010921 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1538010922 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1538010923 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1538010924 CAAX amino terminal protease family; Region: Abi; cl00558 1538010925 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 1538010926 non-specific DNA binding site; other site 1538010927 salt bridge; other site 1538010928 sequence-specific DNA binding site; other site 1538010929 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; cl11391 1538010930 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1538010931 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 1538010932 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 1538010933 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1538010934 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 1538010935 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1538010936 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 1538010937 FeS/SAM binding site; other site 1538010938 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 1538010939 non-specific DNA binding site; other site 1538010940 salt bridge; other site 1538010941 sequence-specific DNA binding site; other site 1538010942 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 (...; Region: S24_LexA-like; cd06529 1538010943 Catalytic site; other site 1538010944 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1538010945 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1538010946 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1538010947 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 1538010948 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1538010949 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 1538010950 hinge; other site 1538010951 active site 1538010952 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1538010953 hypothetical protein; Provisional; Region: PRK05590 1538010954 SEC-C motif; Region: SEC-C; cl12132 1538010955 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 1538010956 Interdomain contacts; other site 1538010957 Cytokine receptor motif; other site 1538010958 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 1538010959 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1538010960 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 (...; Region: EcAsnRS_like_N; cd04318 1538010961 putative dimer interface; other site 1538010962 putative anticodon binding site; other site 1538010963 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...; Region: AsxRS_core; cd00776 1538010964 homodimer interface; other site 1538010965 motif 1; other site 1538010966 motif 2; other site 1538010967 active site 1538010968 motif 3; other site 1538010969 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 1538010970 dUTPase; Region: dUTPase_2; pfam08761 1538010971 Protein of unknown function, DUF606; Region: DUF606; cl01273 1538010972 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538010973 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538010974 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538010975 dimerization interface; other site 1538010976 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1538010977 active site 1538010978 catalytic residues; other site 1538010979 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1538010980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538010981 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 1538010982 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1538010983 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 1538010984 biotin carboxylase; Validated; Region: PRK05586 1538010985 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1538010986 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 1538010987 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1538010988 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 1538010989 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 1538010990 carboxyltransferase (CT) interaction site; other site 1538010991 biotinylation site; other site 1538010992 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1538010993 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 1538010994 dimer interface; other site 1538010995 active site 1538010996 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1538010997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538010998 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1538010999 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1538011000 putative enoyl-(acyl-carrier-protein) reductase II; Region: enACPred_II; TIGR03151 1538011001 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 1538011002 FMN binding site; other site 1538011003 substrate binding site; other site 1538011004 putative catalytic residue; other site 1538011005 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1538011006 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 1538011007 dimer interface; other site 1538011008 active site 1538011009 CoA binding pocket; other site 1538011010 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538011011 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1538011012 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 1538011013 FMN binding site; other site 1538011014 substrate binding site; other site 1538011015 putative catalytic residue; other site 1538011016 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1538011017 Replication initiation and membrane attachment protein (DnaB); Region: DnaB_2; cl12121 1538011018 Replication initiation and membrane attachment protein (DnaB); Region: DnaB_2; cl12121 1538011019 DNA replication protein DnaC; Validated; Region: PRK06835 1538011020 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...; Region: AAA; cd00009 1538011021 Walker A motif; other site 1538011022 ATP binding site; other site 1538011023 Walker B motif; other site 1538011024 Domain of unknown function (DUF299); Region: DUF299; cl00780 1538011025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538011026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538011027 flavoprotein, HI0933 family; Region: TIGR00275 1538011028 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 1538011029 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...; Region: 4HBT; cd00586 1538011030 active site 1538011031 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...; Region: 4HBT; cd00586 1538011032 active site 1538011033 adenylosuccinate synthetase; Provisional; Region: PRK01117 1538011034 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 r-...; Region: AdSS; cd03108 1538011035 GDP-binding site; other site 1538011036 ACT binding site; other site 1538011037 IMP binding site; other site 1538011038 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1538011039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1538011040 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1538011041 Aspartase; Region: Aspartase; cd01357 1538011042 active sites 1538011043 tetramer interface; other site 1538011044 Predicted GTPases [General function prediction only]; Region: COG1160 1538011045 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 1538011046 G1 box; other site 1538011047 GTP/Mg2+ binding site; other site 1538011048 Switch I region; other site 1538011049 G2 box; other site 1538011050 Switch II region; other site 1538011051 G3 box; other site 1538011052 G4 box; other site 1538011053 G5 box; other site 1538011054 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 1538011055 ApbE family; Region: ApbE; cl00643 1538011056 Peptidase dimerization domain; Region: M20_dimer; cl09126 1538011057 GtrA-like protein; Region: GtrA; cl00971 1538011058 Cupin domain; Region: Cupin_2; cl09118 1538011059 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1538011060 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538011061 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1538011062 dimerization interface; other site 1538011063 Sulfite exporter TauE/SafE; Region: TauE; cl00498 1538011064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cl09944 1538011065 active site 1538011066 phosphorylation site 1538011067 intermolecular recognition site; other site 1538011068 dimerization interface; other site 1538011069 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1538011070 Cache domain; Region: Cache_1; pfam02743 1538011071 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1538011072 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538011073 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 1538011074 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1538011075 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 1538011076 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1538011077 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...; Region: AAA; cd00009 1538011078 Walker A motif; other site 1538011079 ATP binding site; other site 1538011080 Walker B motif; other site 1538011081 arginine finger; other site 1538011082 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538011083 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1538011084 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...; Region: AAA; cd00009 1538011085 Walker A motif; other site 1538011086 ATP binding site; other site 1538011087 Walker B motif; other site 1538011088 arginine finger; other site 1538011089 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 1538011090 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1538011091 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...; Region: metallo-dependent_hydrolases; cl00281 1538011092 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...; Region: metallo-dependent_hydrolases; cd01292 1538011093 active site 1538011094 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1538011095 carbamate kinase; Reviewed; Region: PRK12686 1538011096 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1538011097 putative substrate binding site; other site 1538011098 nucleotide binding site; other site 1538011099 nucleotide binding site; other site 1538011100 homodimer interface; other site 1538011101 putrescine carbamoyltransferase; Provisional; Region: PRK02255 1538011102 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1538011103 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1538011104 Domain of unknown function (DUF718); Region: DUF718; cl01281 1538011105 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 1538011106 putative substrate translocation pore; other site 1538011107 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1538011108 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 1538011109 intersubunit interface; other site 1538011110 active site 1538011111 Zn2+ binding site; other site 1538011112 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 1538011113 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 1538011114 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 1538011115 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 1538011116 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1538011117 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 1538011118 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1538011119 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1538011120 dimerization interface; other site 1538011121 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 1538011122 Nitrogen regulatory protein P-II; Region: P-II; cl00412 1538011123 potential frameshift: common BLAST hit: gi|153953067|ref|YP_001393832.1| ammonium transporter 1538011124 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1538011125 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1538011126 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 1538011127 putative dimer interface; other site 1538011128 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 1538011129 putative dimer interface; other site 1538011130 replicative DNA helicase; Provisional; Region: PRK05595 1538011131 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1538011132 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 1538011133 Walker A motif; other site 1538011134 ATP binding site; other site 1538011135 Walker B motif; other site 1538011136 DNA binding loops 1538011137 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 1538011138 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...; Region: AAA; cd00009 1538011139 Walker A motif; other site 1538011140 ATP binding site; other site 1538011141 Walker B motif; other site 1538011142 arginine finger; other site 1538011143 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1538011144 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1538011145 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1538011146 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1538011147 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1538011148 DHH family; Region: DHH; pfam01368 1538011149 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 1538011150 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 1538011151 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 1538011152 dimer interface; other site 1538011153 ssDNA binding site; other site 1538011154 tetramer (dimer of dimers) interface; other site 1538011155 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 1538011156 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 1538011157 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1538011158 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 1538011159 Domain of unknown function DUF20; Region: UPF0118; cl00465 1538011160 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1538011161 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 1538011162 ParB-like partition proteins; Region: parB_part; TIGR00180 1538011163 ParB-like nuclease domain; Region: ParBc; cl02129 1538011164 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1538011165 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...; Region: ParA; cd02042 1538011166 P-loop; other site 1538011167 Magnesium ion binding site; other site 1538011168 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...; Region: ParA; cd02042 1538011169 Magnesium ion binding site; other site 1538011170 ParB-like nuclease domain; Region: ParBc; cl02129 1538011171 ParB-like partition proteins; Region: parB_part; TIGR00180 1538011172 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; cl12011 1538011173 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1538011174 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl10040 1538011175 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 1538011176 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1538011177 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1538011178 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 1538011179 GTP/Mg2+ binding site; other site 1538011180 G4 box; other site 1538011181 G5 box; other site 1538011182 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 1538011183 G1 box; other site 1538011184 G1 box; other site 1538011185 GTP/Mg2+ binding site; other site 1538011186 Switch I region; other site 1538011187 Switch I region; other site 1538011188 G2 box; other site 1538011189 G2 box; other site 1538011190 Switch II region; other site 1538011191 G3 box; other site 1538011192 G3 box; other site 1538011193 Switch II region; other site 1538011194 G4 box; other site 1538011195 G5 box; other site 1538011196 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1538011197 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 1538011198 G-X-X-G motif; other site 1538011199 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 1538011200 RxxxH motif; other site 1538011201 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1538011202 Domain of unknown function DUF37; Region: DUF37; cl00506 1538011203 Ribonuclease P; Region: Ribonuclease_P; cl00457 1538011204 Ribosomal protein L34; Region: Ribosomal_L34; cl00370